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Author SHA1 Message Date
Gregory Becker
f932135f08 node_flag_propagation_candidate: special cases for multiple node attrs 2024-01-26 00:26:06 -08:00
RikkiButler20
b7e7db4890 [@spackbot] updating style on behalf of RikkiButler20 2024-01-16 18:34:04 +00:00
Kayla Butler
f4762cfe7b Fix attribute error
Compiler flag test still fail
2023-11-17 13:51:25 -08:00
Richarda Butler
be5f1bd9d7 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-11-07 13:11:46 -08:00
Kayla Butler
dbb36dbbf1 Change method name 2023-11-07 12:32:00 -08:00
Richarda Butler
5774df6b7a Propagate variant across nodes that don't have that variant (#38512)
Before this PR, variant were not propagated to leaf nodes that could accept 
the propagated value, if some intermediate node couldn't accept it.

This PR fixes that issue by marking nodes as "candidate" for propagation
and by setting the variant only if it can be accepted by the node.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-11-07 21:04:41 +01:00
Harmen Stoppels
3a5c1eb5f3 tutorial pipeline: force gcc@12.3.0 (#40937) 2023-11-07 20:53:44 +01:00
Harmen Stoppels
3a2ec729f7 Ensure global command line arguments end up in args like before (#40929) 2023-11-07 20:35:56 +01:00
Jacob King
a093f4a8ce superlu-dist: add +parmetis variant. (#40746)
* Expose ability to make parmetis an optional superlu-dist dependency to
spack package management.

* rename parmetis variant: Enable ParMETIS library

---------

Co-authored-by: eugeneswalker <eugenesunsetwalker@gmail.com>
2023-11-07 10:21:38 -08:00
Scott Wittenburg
b8302a8277 ci: do not retry timed out build jobs (#40936) 2023-11-07 17:44:28 +00:00
Massimiliano Culpo
32f319157d Update the branch for the tutorial command (#40934) 2023-11-07 16:59:48 +00:00
Harmen Stoppels
75dfad8788 catch exceptions in which_string (#40935) 2023-11-07 17:17:31 +01:00
Vanessasaurus
f3ba20db26 fix configure args for darshan-runtime (#40873)
Problem: the current configure arguments are added lists to a list,
and this needs to be adding strings to the same list.
Solution: ensure we add each item (string) separately.

Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
2023-11-07 07:00:28 -08:00
Rob Falgout
6301edbd5d Update package.py for new release 2.30.0 (#40907) 2023-11-07 07:58:00 -07:00
Massimiliano Culpo
c232bf435a Change container labeling so that "latest" is the latest tag (#40593)
* Use `major.minor.patch`, `major.minor`, `major` in tags

* Ensure `latest` is the semver largest version, and not "latest in time"

* Remove Ubuntu 18.04 from the list of images
2023-11-07 11:53:36 +01:00
Massimiliano Culpo
f3537bc66b ASP: targets, compilers and providers soft-preferences are only global (#31261)
Modify the packages.yaml schema so that soft-preferences on targets,
compilers and providers can only be specified under the "all" attribute.
This makes them effectively global preferences.

Version preferences instead can only be specified under a package
specific section.

If a preference attribute is found in a section where it should
not be, it will be ignored and a warning is printed to screen.
2023-11-07 07:46:06 +01:00
Massimiliano Culpo
4004f27bc0 archspec: update to v0.2.2 (#40917)
Adds support for Neoverse V2
2023-11-07 07:44:52 +01:00
Todd Gamblin
910190f55b database: optimize query() by skipping unnecessary virtual checks (#40898)
Most queries will end up calling `spec.satisfies(query)` on everything in the DB, which
will cause Spack to ask whether the query spec is virtual if its name doesn't match the
target spec's. This can be expensive, because it can cause Spack to check if any new
virtuals showed up in *all* the packages it knows about. That can currently trigger
thousands of `stat()` calls.

We can avoid the virtual check for most successful queries if we consider that if there
*is* a match by name, the query spec *can't* be virtual. This PR adds an optimization to
the query loop to save any comparisons that would trigger a virtual check for last.

- [x] Add a `deferred` list to the `query()` loop.
- [x] First run through the `query()` loop *only* checks for name matches.
- [x] Query loop now returns early if there's a name match, skipping most `satisfies()` calls.
- [x] Second run through the `deferred()` list only runs if query spec is virtual.
- [x] Fix up handling of concrete specs.
- [x] Add test for querying virtuals in DB.
- [x] Avoid allocating deferred if not necessary.

---------

Co-authored-by: Harmen Stoppels <me@harmenstoppels.nl>
2023-11-07 01:00:37 +00:00
Harmen Stoppels
4ce80b95f3 spack compiler find --[no]-mixed-toolchain (#40902)
Currently there's some hacky logic in the AppleClang compiler that makes
it also accept `gfortran` as a fortran compiler if `flang` is not found.

This is guarded by `if sys.platform` checks s.t. it only applies to
Darwin.

But on Linux the feature of detecting mixed toolchains is highly
requested too, cause it's rather annoying to run into a failed build of
`openblas` after dozens of minutes of compiling its dependencies, just
because clang doesn't have a fortran compiler.

In particular in CI where the system compilers may change during system
updates, it's typically impossible to fix compilers in a hand-written
compilers.yaml config file: the config will almost certainly be outdated
sooner or later, and maintaining one config file per target machine and
writing logic to select the correct config is rather undesirable too.

---

This PR introduces a flag `spack compiler find --mixed-toolchain` that
fills out missing `fc` and `f77` entries in `clang` / `apple-clang` by
picking the best matching `gcc`.

It is enabled by default on macOS, but not on Linux, matching current
behavior of `spack compiler find`.

The "best matching gcc" logic and compiler path updates are identical to
how compiler path dictionaries are currently flattened "horizontally"
(per compiler id). This just adds logic to do the same "vertically"
(across different compiler ids).

So, with this change on Ubuntu 22.04:

```
$ spack compiler find --mixed-toolchain
==> Added 6 new compilers to /home/harmen/.spack/linux/compilers.yaml
    gcc@13.1.0  gcc@12.3.0  gcc@11.4.0  gcc@10.5.0  clang@16.0.0  clang@15.0.7
==> Compilers are defined in the following files:
    /home/harmen/.spack/linux/compilers.yaml

```

you finally get:

```
compilers:
- compiler:
    spec: clang@=15.0.7
    paths:
      cc: /usr/bin/clang
      cxx: /usr/bin/clang++
      f77: /usr/bin/gfortran
      fc: /usr/bin/gfortran
    flags: {}
    operating_system: ubuntu23.04
    target: x86_64
    modules: []
    environment: {}
    extra_rpaths: []
- compiler:
    spec: clang@=16.0.0
    paths:
      cc: /usr/bin/clang-16
      cxx: /usr/bin/clang++-16
      f77: /usr/bin/gfortran
      fc: /usr/bin/gfortran
    flags: {}
    operating_system: ubuntu23.04
    target: x86_64
    modules: []
    environment: {}
    extra_rpaths: []
```

The "best gcc" is automatically default system gcc, since it has no
suffixes / prefixes.
2023-11-06 15:17:31 -08:00
Sinan
8f1f9048ec package/qgis: add latest ltr (#40752)
* package/qgis: add latest ltr

* fix bug

* [@spackbot] updating style on behalf of Sinan81

* make flake happy

---------

Co-authored-by: sbulut <sbulut@3vgeomatics.com>
Co-authored-by: Sinan81 <Sinan81@users.noreply.github.com>
2023-11-06 15:55:20 -07:00
Harmen Stoppels
e7372a54a1 docs: expand section about relocation, suggest padding (#40909) 2023-11-06 14:49:54 -08:00
Michael Kuhn
5074b7e922 Add support for aliases (#17229)
Add a new config section: `config:aliases`, which is a dictionary mapping aliases
to commands.

For instance:


```yaml
config:
    aliases:
        sp: spec -I
```

will define a new command `sp` that will execute `spec` with the `-I`
argument. 

Aliases cannot override existing commands, and this is ensured with a test.

We cannot currently alias subcommands. Spack will warn about any aliases
containing a space, but will not error, which leaves room for subcommand
aliases in the future.

---------

Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
2023-11-06 14:37:46 -08:00
Harmen Stoppels
461eb944bd Don't let runtime env variables of compiler like deps leak into the build environment (#40916)
* Test that setup_run_environment changes to CC/CXX/FC/F77 are dropped in build env

* compilers set in run env shouldn't impact build

Adds `drop` to EnvironmentModifications courtesy of @haampie, and uses
it to clear modifications of CC, CXX, F77 and FC made by
`setup_{,dependent_}run_environment` routines when producing an
environment in BUILD context.

* comment / style

* comment

---------

Co-authored-by: Tom Scogland <scogland1@llnl.gov>
2023-11-06 14:30:27 -08:00
Harmen Stoppels
4700108b5b fix prefix_inspections keys in example (#40904) 2023-11-06 13:22:13 -08:00
Harmen Stoppels
3384181868 docs: mention public build cache for GHA (#40908) 2023-11-06 13:21:16 -08:00
Vicente Bolea
f0f6e54b29 adios2: add v2.9.2 release (#40832) 2023-11-06 12:15:29 -08:00
Harmen Stoppels
a2f00886e9 defaults/modules.yaml: hide implicits (#40906) 2023-11-06 10:37:29 -08:00
Harmen Stoppels
1235084c20 Introduce default_args context manager (#39964)
This adds a rather trivial context manager that lets you deduplicate repeated
arguments in directives, e.g.

```python
depends_on("py-x@1", when="@1", type=("build", "run"))
depends_on("py-x@2", when="@2", type=("build", "run"))
depends_on("py-x@3", when="@3", type=("build", "run"))
depends_on("py-x@4", when="@4", type=("build", "run"))
```

can be condensed to

```python
with default_args(type=("build", "run")):
    depends_on("py-x@1", when="@1")
    depends_on("py-x@2", when="@2")
    depends_on("py-x@3", when="@3")
    depends_on("py-x@4", when="@4")
```

The advantage is it's clear for humans, the downside it's less clear for type checkers due to type erasure.
2023-11-06 10:22:29 -08:00
Greg Becker
b5538960c3 error messages: condition chaining (#40173)
Create chains of causation for error messages.

The current implementation is only completed for some of the many errors presented by the concretizer. The rest will need to be filled out over time, but this demonstrates the capability.

The basic idea is to associate conditions in the solver with one another in causal relationships, and to associate errors with the proximate causes of their facts in the condition graph. Then we can construct causal trees to explain errors, which will hopefully present users with useful information to avoid the error or report issues.

Technically, this is implemented as a secondary solve. The concretizer computes the optimal model, and if the optimal model contains an error, then a secondary solve computes causation information about the error(s) in the concretizer output.

Examples:

$ spack solve hdf5 ^cmake@3.0.1
==> Error: concretization failed for the following reasons:

   1. Cannot satisfy 'cmake@3.0.1'
   2. Cannot satisfy 'cmake@3.0.1'
        required because hdf5 ^cmake@3.0.1 requested from CLI 
   3. Cannot satisfy 'cmake@3.18:' and 'cmake@3.0.1
        required because hdf5 ^cmake@3.0.1 requested from CLI 
        required because hdf5 depends on cmake@3.18: when @1.13: 
          required because hdf5 ^cmake@3.0.1 requested from CLI 
   4. Cannot satisfy 'cmake@3.12:' and 'cmake@3.0.1
        required because hdf5 depends on cmake@3.12: 
          required because hdf5 ^cmake@3.0.1 requested from CLI 
        required because hdf5 ^cmake@3.0.1 requested from CLI

$ spack spec cmake ^curl~ldap   # <-- with curl configured non-buildable and an external with `+ldap`
==> Error: concretization failed for the following reasons:

   1. Attempted to use external for 'curl' which does not satisfy any configured external spec
   2. Attempted to build package curl which is not buildable and does not have a satisfying external
        attr('variant_value', 'curl', 'ldap', 'True') is an external constraint for curl which was not satisfied
   3. Attempted to build package curl which is not buildable and does not have a satisfying external
        attr('variant_value', 'curl', 'gssapi', 'True') is an external constraint for curl which was not satisfied
   4. Attempted to build package curl which is not buildable and does not have a satisfying external
        'curl+ldap' is an external constraint for curl which was not satisfied
        'curl~ldap' required
        required because cmake ^curl~ldap requested from CLI 

$ spack solve yambo+mpi ^hdf5~mpi
==> Error: concretization failed for the following reasons:

   1. 'hdf5' required multiple values for single-valued variant 'mpi'
   2. 'hdf5' required multiple values for single-valued variant 'mpi'
    Requested '~mpi' and '+mpi'
        required because yambo depends on hdf5+mpi when +mpi 
          required because yambo+mpi ^hdf5~mpi requested from CLI 
        required because yambo+mpi ^hdf5~mpi requested from CLI 
   3. 'hdf5' required multiple values for single-valued variant 'mpi'
    Requested '~mpi' and '+mpi'
        required because netcdf-c depends on hdf5+mpi when +mpi 
          required because netcdf-fortran depends on netcdf-c 
            required because yambo depends on netcdf-fortran 
              required because yambo+mpi ^hdf5~mpi requested from CLI 
          required because netcdf-fortran depends on netcdf-c@4.7.4: when @4.5.3: 
            required because yambo depends on netcdf-fortran 
              required because yambo+mpi ^hdf5~mpi requested from CLI 
          required because yambo depends on netcdf-c 
            required because yambo+mpi ^hdf5~mpi requested from CLI 
          required because yambo depends on netcdf-c+mpi when +mpi 
            required because yambo+mpi ^hdf5~mpi requested from CLI 
        required because yambo+mpi ^hdf5~mpi requested from CLI 

Future work:

In addition to fleshing out the causes of other errors, I would like to find a way to associate different components of the error messages with different causes. In this example it's pretty easy to infer which part is which, but I'm not confident that will always be the case. 

See the previous PR #34500 for discussion of how the condition chains are incomplete. In the future, we may need custom logic for individual attributes to associate some important choice rules with conditions such that clingo choices or other derivations can be part of the explanation.

---------

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-11-06 09:55:21 -08:00
Michael Kuhn
d3d82e8d6b c-blosc2: add v2.11.1 (#40889) 2023-11-06 09:48:42 -08:00
Tamara Dahlgren
17a9198c78 Environments: remove environments created with SpackYAMLErrors (#40878) 2023-11-06 18:48:28 +01:00
Juan Miguel Carceller
c6c689be28 pythia8: fix configure args (#40644)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-11-06 09:33:23 -08:00
AMD Toolchain Support
ab563c09d2 enable threading in amdlibflame (#40852)
Co-authored-by: vkallesh <Vijay-teekinavar.Kallesh@amd.com>
2023-11-06 09:20:19 -08:00
Sergio Sánchez Ramírez
abdac36fd5 Add Python as build dependency of Julia (#40903) 2023-11-06 09:03:38 -07:00
Harmen Stoppels
b8a18f0a78 mpich: remove unnecessary tuples and upperbounds (#40899)
* mpich: remove unnecessary tuples

* remove redundant :3.3.99 upperbound
2023-11-06 07:58:50 -07:00
Wouter Deconinck
17656b2ea0 qt: new version 5.15.11 (#40884)
* qt: new version 5.15.11

* qt: open end patch for qtlocation when gcc-10:
2023-11-06 06:08:19 -07:00
Harmen Stoppels
3c641c8509 spack env activate: create & activate default environment without args (#40756)
This PR implements the concept of "default environment", which doesn't have to be
created explicitly. The aim is to lower the barrier for adopting environments.

To (create and) activate the default environment, run

```
$ spack env activate
```

This mimics the behavior of

```
$ cd
```

which brings you to your home directory.

This is not a breaking change, since `spack env activate` without arguments
currently errors. It is similar to the already existing `spack env activate --temp`
command which always creates an env in a temporary directory, the difference
is that the default environment is a managed / named environment named `default`.

The name `default` is not a reserved name, it's just that `spack env activate`
creates it for you if you don't have it already.

With this change, you can get started with environments faster:

```
$ spack env activate [--prompt]
$ spack install --add x y z
```

instead of

```
$ spack env create default
==> Created environment 'default in /Users/harmenstoppels/spack/var/spack/environments/default
==> You can activate this environment with:
==>   spack env activate default
$ spack env activate [--prompt] default 
$ spack install --add x y z
```

Notice that Spack supports switching (but not stacking) environments, so the
parallel with `cd` is pretty clear:

```
$ spack env activate named_env
$ spack env status
==> In environment named_env
$ spack env activate
$ spack env status
==> In environment default
```
2023-11-05 22:53:26 -08:00
Michael Kuhn
141c7de5d8 Add command and package suggestions (#40895)
* Add command suggestions

This adds suggestions of similar commands in case users mistype a
command. Before:
```
$ spack spack
==> Error: spack is not a recognized Spack command or extension command; check with `spack commands`.
```
After:
```
$ spack spack
==> Error: spack is not a recognized Spack command or extension command; check with `spack commands`.

Did you mean one of the following commands?
  spec
  patch
```

* Add package name suggestions

* Remove suggestion to run spack clean -m
2023-11-05 14:32:09 -08:00
Todd Gamblin
f6b23b4653 bugfix: compress aliases for first command in completion (#40890)
This completes to `spack concretize`:

```
spack conc<tab>
```

but this still gets hung up on the difference between `concretize` and `concretise`:

```
spack -e . conc<tab>
```

We were checking `"$COMP_CWORD" = 1`, which tracks the word on the command line
including any flags and their args, but we should track `"$COMP_CWORD_NO_FLAGS" = 1` to
figure out if the arg we're completing is the first real command.
2023-11-05 10:15:37 +00:00
Harmen Stoppels
4755b28398 Hidden modules: always append hash (#40868) 2023-11-05 08:56:11 +01:00
Tamara Dahlgren
c9dfb9b0fd Environments: Add support for including definitions files (#33960)
This PR adds support for including separate definitions from `spack.yaml`.

Supporting the inclusion of files with definitions enables user to make
curated/standardized collections of packages that can re-used by others.
2023-11-05 00:47:06 -07:00
Veselin Dobrev
5a67c578b7 mfem: allow cuda/rocm builds with superlu-dist built without cuda/rocm (#40847) 2023-11-04 20:15:56 -05:00
Michael Kuhn
e47be18acb c-blosc: add v1.21.5 (#40888) 2023-11-04 16:51:37 -07:00
Harmen Stoppels
6593d22c4e spack.modules.commmon: pass spec to SetupContext (#40886)
Currently module globals aren't set before running
`setup_[dependent_]run_environment` to compute environment modifications
for module files. This commit fixes that.
2023-11-04 20:42:47 +00:00
Massimiliano Culpo
f51dad976e hdf5-vol-async: better specify dependency condition (#40882) 2023-11-04 20:31:52 +01:00
Cameron Rutherford
ff8cd597e0 hiop: fix cuda constraints (#40875) 2023-11-04 13:09:59 -05:00
eugeneswalker
fd22d109a6 sundials +sycl: add cxxflags=-fsycl via flag_handler (#40845) 2023-11-04 08:55:19 -05:00
zv-io
88ee3a0fba linux-headers: support multiple versions (#40877)
The download URL for linux-headers was hardcoded to 4.x;
we need to derive the correct URL from the version number.
2023-11-04 12:21:12 +01:00
Massimiliano Culpo
f50377de7f environment: solve one spec per child process (#40876)
Looking at the memory profiles of concurrent solves
for environment with unify:false, it seems memory
is only ramping up.

This exchange in the potassco mailing list:
 https://sourceforge.net/p/potassco/mailman/potassco-users/thread/b55b5b8c2e8945409abb3fa3c935c27e%40lohn.at/#msg36517698

Seems to suggest that clingo doesn't release memory
until end of the application.

Since when unify:false we distribute work to processes,
here we give a maxtaskperchild=1, so we clean memory
after each solve.
2023-11-03 23:10:42 +00:00
Adam J. Stewart
8e96d3a051 GDAL: add v3.7.3 (#40865) 2023-11-03 22:59:52 +01:00
Richarda Butler
8fc1ba2d7a Bugfix: propagation of multivalued variants (#39833)
Don't encourage use of default value if propagating a multivalued variant.
2023-11-03 12:09:39 -07:00
Massimiliano Culpo
668a5b45e5 clingo-bootstrap: force setuptools through variant (#40866) 2023-11-03 16:53:45 +01:00
Andrew W Elble
70171d6caf squashfuse: remove url_for_version (#40862)
0.5.0 tarball now has the 'v' removed from the name
2023-11-03 10:34:25 -04:00
Thomas-Ulrich
0f1898c82a xdmf3: fix compilation with hdf5@1.10 and above (#37551) 2023-11-03 14:23:49 +01:00
Massimiliano Culpo
db16335aec ASP-based solver: fix for unsplittable providers (#40859)
Some providers must provide virtuals "together", i.e.
if they provide one virtual of a set, they must be the
providers also of the others.

There was a bug though, where we were not checking if
the other virtuals in the set were needed at all in
the DAG.

This commit fixes the bug.
2023-11-03 12:56:37 +01:00
Harmen Stoppels
3082ce6a22 oci parsing: make image name case insensitive (#40858) 2023-11-03 12:50:30 +01:00
George Young
fe0cf80e05 py-spython: updating to @0.3.1 (#40839)
* py-spython: updating to @0.3.1

* Adding `when=` for py-semver

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-11-03 05:07:58 -06:00
Thomas-Ulrich
a5e6097af7 fix typo in packaging guide (#40853) 2023-11-03 09:56:13 +01:00
eugeneswalker
d4a1618e07 tau: update 2.33 hash, add syscall variant (#40851)
Co-authored-by: wspear <wjspear@gmail.com>
2023-11-03 07:58:00 +01:00
Veselin Dobrev
48a21970d1 MFEM: add logic to find CUDA math-libs when using HPC SDK installation (#40815)
* mfem: add logic to find CUDA math-libs when using HPC SDK installation

* [@spackbot] updating style on behalf of v-dobrev
2023-11-02 20:19:11 -07:00
Martin Aumüller
864d47043c qt-svg: new package for Qt6 SVG module (#40834)
enables loading of SVG icons by providing plugin used by qt-base
2023-11-02 17:05:54 -07:00
Martin Aumüller
c2af2bcac3 qt-*: add v6.5.3 & v6.6.0 (#40833) 2023-11-02 19:52:15 -04:00
Martin Aumüller
7c79c744b6 libtheora: fix build on macos (#40840)
* libtheora: regenerate Makefile.in during autoreconf

The patch to inhibit running of configure would exit autogen.sh so early
that it did not yet run autoconf/automake/...
Instead of patching autogen.sh, just pass -V as argument, as this is
passed on to configure and lets it just print its version instead of
configuring the build tree.

Also drop arguments from autogen.sh, as they are unused when configure
does not run.

* libtheora: fix build on macos

Apply upstream patches in order to avoid unresolved symbols during building of libtheoraenc.
These patches require re-running automake/autoconf/...

Error messages:
libtool: link: /Users/ma/git/spack/lib/spack/env/clang/clang -dynamiclib  -o .libs/libtheoraenc.1.dylib  .libs/apiwrapper.o .libs/fragment.o .libs/idct.o .libs/internal.o .libs/state.o .libs/quant.o .l
ibs/analyze.o .libs/fdct.o .libs/encfrag.o .libs/encapiwrapper.o .libs/encinfo.o .libs/encode.o .libs/enquant.o .libs/huffenc.o .libs/mathops.o .libs/mcenc.o .libs/rate.o .libs/tokenize.o   -L/opt/spac
k/darwin-sonoma-m1/apple-clang-15.0.0/libtheora-1.1.1-uflq3jvysewnrmlj5x5tvltst65ho3v4/lib -logg -lm  -Wl,-exported_symbols_list -Wl,/var/folders/zv/qr55pmd9065glf0mcltpx5bm000102/T/ma/spack-stage/spac
k-stage-libtheora-1.1.1-uflq3jvysewnrmlj5x5tvltst65ho3v4/spack-src/lib/theoraenc.exp   -install_name  /opt/spack/darwin-sonoma-m1/apple-clang-15.0.0/libtheora-1.1.1-uflq3jvysewnrmlj5x5tvltst65ho3v4/lib
/libtheoraenc.1.dylib -compatibility_version 3 -current_version 3.2
ld: warning: search path '/opt/spack/darwin-sonoma-m1/apple-clang-15.0.0/libtheora-1.1.1-uflq3jvysewnrmlj5x5tvltst65ho3v4/lib' not found
ld: Undefined symbols:
  _th_comment_add, referenced from:
      _theora_comment_add in apiwrapper.o
  _th_comment_add_tag, referenced from:
      _theora_comment_add_tag in apiwrapper.o
  _th_comment_clear, referenced from:
      _theora_comment_clear in apiwrapper.o
  _th_comment_init, referenced from:
      _theora_comment_init in apiwrapper.o
  _th_comment_query, referenced from:
      _theora_comment_query in apiwrapper.o
  _th_comment_query_count, referenced from:
      _theora_comment_query_count in apiwrapper.o

* libtheora: add git versions

stable as version name for theora-1.1 branch was chosen so that it sorts between 1.1.x and master

* libtheora: remove unused patch

thanks to @michaelkuhn for noticing
2023-11-03 00:08:22 +01:00
garylawson
94d143763e Update Anaconda3 -- add version 2023.09-0 for x86_64, aarch64, and ppc64le (#40622)
* Add 2023.09-0 for x86_64, aarch64, and ppc64le
   extend the anaconda3 package.py to support aarch64 and ppc64le. 
   add the latest version of anaconda3 to each new platform, including the existing x86_64
* formatting
2023-11-02 16:42:44 -06:00
Vanessasaurus
6f9425c593 Automated deployment to update package flux-sched 2023-10-18 (#40596)
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
Co-authored-by: Tom Scogland <scogland1@llnl.gov>
2023-11-02 13:16:39 -07:00
Nicolas Cornu
05953e4491 highfive: 2.8.0 (#40837)
Co-authored-by: Nicolas Cornu <me@alkino.fr>
2023-11-02 14:03:44 -06:00
Sergey Kosukhin
6b236f130c eccodes: rename variant 'definitions' to 'extra_definitions' (#36186) 2023-11-02 13:28:31 -06:00
Greg Becker
fa08de669e bugfix: computing NodeID2 in requirement node_flag_source (#40846) 2023-11-02 20:17:54 +01:00
Seth R. Johnson
c2193b5470 py-pint: new versions 0.21, 0.22 (#40745)
* py-pint: new versions 0.21, 0.22

* Address feedback

* Fix dumb typo

* Add typing extension requirement
2023-11-02 14:13:19 -05:00
Chris Richardson
b5b94d89d3 Update to latest version (#40778) 2023-11-02 14:07:44 -05:00
vucoda
dd57b58c2f py-pyside2: fix to build with newer llvm and to use spack install headers (#40544)
* Fix py-pyside2 to build with newer llvm and to use spack libglx and libxcb headers where system headers are missing

pyside2 needs LLVM_INSTALL_DIR to be set when using llvm 11: and expects system headers for libglx and libxcb and won't build otherwise.

* Fix styling

* remove raw string type

* Update var/spack/repos/builtin/packages/py-pyside2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-11-02 14:03:18 -05:00
Chris Richardson
29a30963b3 Fixes to ffcx @0.6.0 (#40787) 2023-11-02 14:02:07 -05:00
Jordan Ogas
3447e425f0 add charliecloud 0.35 (#40842)
* add charliecloud 0.35
* fix linter rage
* fix linter rage?
2023-11-02 11:23:49 -07:00
Juan Miguel Carceller
518da16833 Gaudi: Add a few versions and a dependency on tbb after 37.1 (#40802)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-11-02 11:15:27 -07:00
Paul R. C. Kent
4633327e60 llvm: add 17.0.2-4 (#40820) 2023-11-02 17:00:35 +01:00
Harmen Stoppels
6930176ac6 clingo ^pyhton@3.12: revisit distutils fix (#40844) 2023-11-02 16:48:21 +01:00
Adam J. Stewart
bb64b22066 PyTorch: build with external sleef (#40763)
Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>
2023-11-02 16:09:49 +01:00
Harmen Stoppels
8b0ab67de4 depfile: deal with empty / non-concrete env (#40816) 2023-11-02 16:04:35 +01:00
Satish Balay
dbf21bf843 exago: update petsc dependency (#40831) 2023-11-02 07:29:37 -07:00
Harmen Stoppels
af3a29596e go/rust bootstrap: no versions if unsupported arch (#40841)
The lookup in a dictionary causes KeyError on package load for
unsupported architectures such as i386 and ppc big endian.
2023-11-02 08:13:13 -06:00
Harmen Stoppels
80944d22f7 spack external find: fix multi-arch troubles (#33973) 2023-11-02 09:45:31 +01:00
Tamara Dahlgren
f56efaff3e env remove: add a unit test removing two environments (#40814) 2023-11-02 08:51:08 +01:00
Martin Aumüller
83bb2002b4 openscenegraph: support more file formats (#39897) 2023-11-02 08:41:03 +01:00
Massimiliano Culpo
16fa3b9f07 Cherry-picking virtual dependencies (#35322)
This PR makes it possible to select only a subset of virtual dependencies from a spec that _may_ provide more. To select providers, a syntax to specify edge attributes is introduced:
```
hdf5 ^[virtuals=mpi] mpich
```
With that syntax we can concretize specs like:
```console
$ spack spec strumpack ^[virtuals=mpi] intel-parallel-studio+mkl ^[virtuals=lapack] openblas
```

On `develop` this would currently fail with:
```console
$ spack spec strumpack ^intel-parallel-studio+mkl ^openblas
==> Error: Spec cannot include multiple providers for virtual 'blas'
    Requested 'intel-parallel-studio' and 'openblas'
```

In package recipes, virtual specs that are declared in the same `provides` directive need to be provided _together_. This means that e.g. `openblas`, which has:
```python
provides("blas", "lapack")
```
needs to provide both `lapack` and `blas` when requested to provide at least one of them.

## Additional notes

This capability is needed to model compilers. Assuming that languages are treated like virtual dependencies, we might want e.g. to use LLVM to compile C/C++ and Gnu GCC to compile Fortran. This can be accomplished by the following[^1]:
```
hdf5 ^[virtuals=c,cxx] llvm ^[virtuals=fortran] gcc
```

[^1]: We plan to add some syntactic sugar around this syntax, and reuse the `%` sigil to avoid having a lot of boilerplate around compilers.

Modifications:
- [x] Add syntax to interact with edge attributes from spec literals
- [x] Add concretization logic to be able to cherry-pick virtual dependencies
- [x] Extend semantic of the `provides` directive to express when virtuals need to be provided together
- [x] Add unit-tests and documentation
2023-11-01 23:35:23 -07:00
Thomas Madlener
6cd2241e49 edm4hep: Add 0.10.1 tag and update maintainers (#40829)
* edm4hep: add latest tag
* edm4hep: Add myself as maintainer
2023-11-01 23:04:00 -06:00
RikkiButler20
88368dea40 [@spackbot] updating style on behalf of RikkiButler20 2023-11-02 02:25:24 +00:00
Kayla Butler
968223758a Update & add test
Test for propagating compiler flags that aren't the root spec
2023-11-01 18:47:49 -07:00
snehring
6af45230b4 ceres-solver: adding version 2.2.0 (#40824)
* ceres-solver: adding version 2.2.0
* ceres-solver: adding suite-sparse dep
2023-11-01 17:47:55 -07:00
snehring
a8285f0eec vcftools: add v0.1.16 (#40805)
* vcftools: adding new version 0.1.16

* Update var/spack/repos/builtin/packages/vcftools/package.py

Co-authored-by: Alec Scott <alec@bcs.sh>

---------

Co-authored-by: Alec Scott <alec@bcs.sh>
2023-11-01 16:33:12 -07:00
Adam J. Stewart
e7456e1aab py-matplotlib: add v3.8.1 (#40819) 2023-11-01 16:33:00 -07:00
Jeremy L Thompson
dd636dd3fb libCEED v0.12.0, Ratel v0.3.0 (#40822)
* ratel - add v0.3.0
* libceed - add version 0.12.0
2023-11-01 16:29:18 -07:00
Mikael Simberg
a73c95b734 pika: Add 0.20.0 (#40817) 2023-11-01 17:19:56 -06:00
Miroslav Stoyanov
33b355a085 heffte: add v2.4.0 (#40741)
* update the heffte versions

* remove obsolete patch files

* update testing

* style

* restore version (unknown reason)

* restore old patch

* change the syntax

* [@spackbot] updating style on behalf of mkstoyanov

* missed one

* style
2023-11-01 16:54:11 -06:00
Satish Balay
f7630f265b pflotran: add version 5.0.0 (#40828)
alquimia: add version 1.1.0
And fix alquimia@master
2023-11-01 15:16:04 -07:00
dependabot[bot]
9744e86d02 build(deps): bump black in /.github/workflows/style (#40681)
Bumps [black](https://github.com/psf/black) from 23.9.1 to 23.10.1.
- [Release notes](https://github.com/psf/black/releases)
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md)
- [Commits](https://github.com/psf/black/compare/23.9.1...23.10.1)

---
updated-dependencies:
- dependency-name: black
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-11-01 14:20:29 -07:00
Harmen Stoppels
ff6bbf03a1 changelog: add 0.20.2 and 0.20.3 changes (#40818) 2023-11-01 22:09:11 +01:00
Cameron Rutherford
0767c8673e hiop: fix cuda constraints and add tag to versions (#40721)
* hiop: fix cuda constraints and add tag to versions

* hiop: fix styling
2023-11-01 13:21:14 -07:00
Satish Balay
9aa75eaf65 superlu-dist: -std=c99 prevents usage of putenv() (#40729) 2023-11-01 12:44:13 -07:00
Weiqun Zhang
73f012b999 amrex: add v23.11 (#40821) 2023-11-01 12:38:02 -07:00
Satish Balay
c7a8a83cbf petsc, py-petsc4py: add v3.20.1 (#40794) 2023-11-01 12:37:53 -07:00
Satish Balay
5f87db98ea butterflypack: add version 2.4.0 (#40826) 2023-11-01 12:20:13 -07:00
Brian Van Essen
d05dc8a468 LBANN: add explicit variant for shared builds (#40808) 2023-11-01 13:18:57 -06:00
wspear
afa2a2566e Add 2.33 to tau (#40810) 2023-11-01 12:10:35 -07:00
Thomas Madlener
581f45b639 podio: Add latest tags and variants and update dependencies accordingly (#40182)
* Make sure sio is in dependent build env for podio

* podio: Fix likely(?) typo in root dependency

* podio: Add latest tag and new variants + dependencies

* podio: Add v00-16-07 tag

* podio: Fix dependencies flagged by package audit

* podio: Simplify root dependency

* podio: Add 0.17.1 tag
2023-11-01 13:44:11 -05:00
Bilal Mirza
92780a9af6 fix: sentence framing (#40809) 2023-11-01 11:41:37 +01:00
Harmen Stoppels
2ea8e6c820 Executable.add_default_arg: multiple (#40801) 2023-11-01 09:14:37 +01:00
Harmen Stoppels
ac976a4bf4 Parser: fix ambiguity with whitespace in version ranges (#40344)
Allowing white space around `:` in version ranges introduces an ambiguity:

```
a@1: b
```

parses as `a@1:b` but should really be parsed as two separate specs `a@1:` and `b`.

With white space disallowed around `:` in ranges, the ambiguity is resolved.
2023-11-01 09:08:57 +01:00
Harmen Stoppels
e5f3ffc04f SetupContext.get_env_modifications fixes and documentation (#40683)
Call setup_dependent_run_environment on both link and run edges,
instead of only run edges, which restores old behavior.

Move setup_build_environment into get_env_modifications

Also call setup_run_environment on direct build deps, since their run
environment has to be set up.
2023-11-01 08:47:15 +01:00
Harmen Stoppels
7aaed4d6f3 Revert python build isolation & setuptools source install (#40796)
* Revert "Improve build isolation in PythonPipBuilder (#40224)"

This reverts commit 0f43074f3e.

* Revert "py-setuptools: sdist + rpath patch backport (#40205)"

This reverts commit 512e41a84a.
2023-11-01 07:10:34 +01:00
Tamara Dahlgren
f5d717cd5a Fix env remove indentation (#40811) 2023-11-01 00:08:46 -06:00
Sreenivasa Murthy Kolam
cb018fd7eb Enable address sanitizer in rocm's llvm-amdgpu package. (#40570)
* enable address sanitizer in rocm's llvm-amdgpu package
* remove references to 5.7.0 for now
* fix style error
* address review comments
2023-10-31 19:09:40 -06:00
Luisa Burini
e5cebb6b6f fix create/remove env with invalid spack.yaml (#39898)
* fix create/remove env with invalid spack.yaml
* fix isort error
* fix env ident unittests
* Fix pull request points
2023-10-31 15:39:42 -07:00
Patrick Bridges
4738b45fb1 beatnik: mall changes for v1.0 (#40726)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-10-31 22:28:48 +01:00
Harmen Stoppels
343ed8a3fa force color in subshell if not SPACK_COLOR (#40782) 2023-10-31 22:27:00 +01:00
Adam J. Stewart
58e5315089 PyTorch: build with external gloo (#40759)
* PyTorch: build with external gloo

* Fix gloo compilation with GCC 11

* undeprecate

* py-torch+cuda+gloo requires gloo+cuda
2023-10-31 16:25:24 -05:00
Samuel Li
26649e71f9 Update sperr (#40626)
* update SPERR package
* remove blank line
* update SPERR to be version 0.7.1
* a little clean up
* bound versions that require zstd
* add USE_ZSTD
* add libpressio-sperr version upbound
* update libpressio-sperr
* address review comments
* improve format

---------

Co-authored-by: Samuel Li <Sam@Navada>
Co-authored-by: Samuel Li <sam@cisl-m121a>
2023-10-31 13:53:09 -07:00
Peter Scheibel
2f2d9ae30d Fix cflags requirements (#40639) 2023-10-31 21:19:12 +01:00
jalcaraz
f9c0a15ba0 TAU: Added dyninst variant (#40790)
* Added dyninst variant

* Added dyninst variant and fixed some issues

* Update package.py

* Removed whitespace

* Update package.py

* Update package.py

* Fixed conflicting version

---------

Co-authored-by: eugeneswalker <38933153+eugeneswalker@users.noreply.github.com>
2023-10-31 13:28:16 -06:00
Sreenivasa Murthy Kolam
14cb923dd8 add new recipe for rocm packages- amdsmi (#39270)
* add new recipe for rocm packages- amdsmilib
* update tags,maintainers list
2023-10-31 10:18:32 -07:00
Massimiliano Culpo
544a121248 Fix interaction of spec literals that propagate variants with unify:false (#40789)
* Add tests to ensure variant propagation syntax can round-trip to/from string

* Add a regression test for the bug in 35298

* Reconstruct the spec constraints in the worker process

Specs do not preserve any information on propagation of variants
when round-tripping to/from JSON (which we use to pickle), but
preserve it when round-tripping to/from strings.

Therefore, we pass a spec literal to the worker and reconstruct
the Spec objects there.
2023-10-31 17:50:13 +01:00
Harmen Stoppels
cd6bb9e159 spack checksum: improve signature (#40800) 2023-10-31 16:52:53 +01:00
Greg Sjaardema
e420a685a9 Seacas: Update for latest seacas releaes version (#40698) 2023-10-31 09:38:20 -06:00
Harmen Stoppels
40a5c1ff2d spack checksum: fix error when initial filter yields empty list (#40799) 2023-10-31 15:08:41 +01:00
Harmen Stoppels
6933e1c3cb ci: bump tutorial image and toolchain (#40795) 2023-10-31 12:58:33 +01:00
Harmen Stoppels
160bfd881d tutorial: replace zlib -> gmake to avoid deprecated versions (#40769) 2023-10-31 10:04:53 +01:00
G-Ragghianti
81997ae6d6 Added NVML and cgroup support to the slurm package (#40638)
* Added NVML support to the slurm package
* dbus package is required for cgroup support
* Fixing formatting
* Style fix
* Added PAM support
* Added ROCm SMI support
2023-10-30 19:12:09 -07:00
Todd Gamblin
702a2250fa docs: update license() docs with examples and links (#40598)
- [x] Add links to information people are going to want to know when adding license
      information to their packages (namely OSI licenses and SPDX identifiers).
- [x] Update the packaging docs for `license()` with Spack as an example for `when=`.
      After all, it's a dual-licensed package that changed once in the past.
- [x] Add link to https://spdx.org/licenses/ in the `spack create` boilerplate as well.
2023-10-30 18:54:31 -07:00
Freifrau von Bleifrei
3a0f9ce226 selalib: add (sca)lapack dependency (#40667)
* selalib: add (sca)lapack dependency
* selalib: change when "-mpi" to "~mpi"
2023-10-30 18:28:52 -07:00
Thomas Madlener
a095c8113d dd4hep: Add tag for version 1.27 (#40776) 2023-10-30 17:55:33 -07:00
Larry Knox
4ef433b64d Add hdf5 version 1.14.3. (#40786)
Add hdf5 version 1.10.11.
Update version condition for adding h5pfc->h5fc symlink.  File h5pfc
exists in versions 1.10.10 and 1.10.22.
2023-10-30 17:22:55 -06:00
dependabot[bot]
f228c7cbcc build(deps): bump black from 23.9.1 to 23.10.1 in /lib/spack/docs (#40680)
Bumps [black](https://github.com/psf/black) from 23.9.1 to 23.10.1.
- [Release notes](https://github.com/psf/black/releases)
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md)
- [Commits](https://github.com/psf/black/compare/23.9.1...23.10.1)

---
updated-dependencies:
- dependency-name: black
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-31 00:11:53 +01:00
MatthewLieber
e9ca16ab07 adding sha for OMB 7.3 release (#40784)
Co-authored-by: Matt Lieber <lieber.31@osu.edu>
2023-10-30 16:01:48 -07:00
Andrew W Elble
47ac2b8d09 squashfuse: add version 0.5.0 (#40775) 2023-10-30 11:33:22 -06:00
Harmen Stoppels
b1b8500eba ci: print colored specs in concretization progress (#40711) 2023-10-30 15:29:27 +01:00
Harmen Stoppels
060a1ff2f3 tty: flush immediately (#40774) 2023-10-30 15:07:30 +01:00
marcost2
9ed9a541c9 freesurfer: fix support for linux (#39864)
* Load the script file during enviroment setup so that all the enviroment variables are set properly
* Patch csh/tcsh so that it uses spacks via env
* Update SHA for latest version
* Extend shebang to perl and fix up the regex
2023-10-30 14:19:42 +01:00
Alec Scott
1ebf1c8d1c must: remove release candidates (#40476) 2023-10-30 14:08:23 +01:00
SXS Bot
c2f3943e9e spectre: add v2023.10.11 (#40463)
Co-authored-by: nilsvu <nilsvu@users.noreply.github.com>
2023-10-30 13:56:05 +01:00
Brian Vanderwende
1ba530bff5 Get utilities necessary for successful PIO build (#40502) 2023-10-30 13:53:57 +01:00
RichardBuntLinaro
cc09e88a4a linaro-forge: add v23.0.4 (#40772) 2023-10-30 06:43:07 -06:00
Harmen Stoppels
2f3801196d binary_distribution.py: fix type annotation singleton (#40572)
Convince the language server it's really just a BinaryCacheIndex,
otherwise it defaults to thinking it's Singleton, and can't autocomplete
etc.
2023-10-30 12:52:47 +01:00
Juan Miguel Carceller
d03289c38b Fetch recola from gitlab and add a new version of collier (#40651)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-10-30 12:22:31 +01:00
kwryankrattiger
e720d8640a ISPC: Drop ncurses workaround in favor of patch (#39662)
ISPC had a bug in their lookup for NCurses, this was fixed upstream and
backported here.
2023-10-30 12:16:25 +01:00
Federico Ficarelli
00602cda4f pegtl: add v3.2.7 (#35687) 2023-10-30 12:12:20 +01:00
Alberto Sartori
35882130ce justbuild: add version 1.2.2 (#40701) 2023-10-30 12:09:42 +01:00
Brian Van Essen
1586c8c786 aluminum: make network variants "sticky" (#40715) 2023-10-30 11:26:24 +01:00
Wouter Deconinck
a9e78dc7d8 acts: new variant +binaries when +examples (#40738)
Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
2023-10-30 10:40:31 +01:00
wspear
b53b235cff RAJA: add "plugins" variant (#40750) 2023-10-30 09:40:08 +01:00
Veselin Dobrev
33cb8c988f Fix an issue with using the environment variable MACHTYPE which is not always defined (#40733)
* Fix an issue reported here:
   https://github.com/spack/spack/pull/36154#issuecomment-1781854894

* [@spackbot] updating style on behalf of v-dobrev
2023-10-30 09:36:02 +01:00
Adam J. Stewart
6511d3dfff py-pandas: add v2.1.2 (#40734) 2023-10-30 03:32:48 -05:00
Adam J. Stewart
272ca0fc24 PyTorch: build with external fp16 (#40760) 2023-10-30 09:28:52 +01:00
Martin Aumüller
a8f42b865f pcl: checksum new versions (#39039) 2023-10-30 08:54:36 +01:00
Cameron Rutherford
7739c54eb5 exago: fix exago missing on PYTHONPATH when +python (#40748) 2023-10-30 08:35:36 +01:00
Veselin Dobrev
bd1bb7d1ba mfem: support petsc+rocm with spack-installed rocm (#40768) 2023-10-30 01:17:51 -06:00
Massimiliano Culpo
6983db1392 ASP-based solver: avoid cycles in clingo using hidden directive (#40720)
The code should be functonally equivalent to what it was before,
but now to avoid cycles by design we are using a "hidden"
feature of clingo
2023-10-30 07:38:53 +01:00
Wouter Deconinck
2a797f90b4 acts: add v28.1.0:30.3.2 (#40723)
* acts: new version from 28.1.0 to 30.3.1

* acts: new version 30.3.2

* acts: new variant +podio
2023-10-29 18:01:27 -07:00
Harmen Stoppels
2e097b4cbd py-numcodecs: fix broken sse / avx2 variables (#40754) 2023-10-29 13:45:23 -05:00
Aoba
a1282337c0 Add liggght patched for newer compiler (#38685)
* Add liggght patched for newer compiler

Add C++ 17 support
Add Clang and Oneapi support

* Add maintainers

* Fix format in liggghts

* Fix maintainers before versions

Co-authored-by: Alec Scott <alec@bcs.sh>

* Fix style and user to usr

* Update package.py

---------

Co-authored-by: Alec Scott <alec@bcs.sh>
2023-10-29 09:56:27 -07:00
Jerome Soumagne
361d973f97 mercury: add v2.3.1 (#40749) 2023-10-28 10:05:50 -07:00
Lydéric Debusschère
64ec6e7d8e py-moarchiving: new package (#40558)
* [add] py-moarchiving: new package

* py-moarchiving: update from review: description, variant default value is False, switch when and type

---------

Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-28 08:06:48 -05:00
Lydéric Debusschère
9f95945cb5 py-generateds: new package (#40555)
* [add] py-generateds: new package

* py-generateds: Update from review

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* py-generateds: add versions 2.41.5, 2.42.1, 2.42.2, 2.43.1 and 2.43.2

---------

Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
2023-10-28 08:05:37 -05:00
Rémi Lacroix
21f3240e08 NCCL: Add version 2.19.3-1 (#40704) 2023-10-28 08:03:02 -05:00
Jen Herting
28d617c1c8 New version of py-langsmith (#40674)
Co-authored-by: Benjamin Meyers <bsmits@rit.edu>
2023-10-28 08:02:19 -05:00
Erik Heeren
7da4b3569f py-bluepyemodel: opensourcing with dependencies (#40592)
* py-bluepyemodel: new package with dependencies

* py-morphio: add MPI as dependency to avoid failing builds

* Formatting

* py-bluepyefe: no need to set NEURON_INIT_MPI

* py-morphio: unifurcation branch is ancient history

* py-bluepyopt: only set NEURON_INIT_MPI with +neuron

* py-efel: get rid of old version

* py-morph{-tool,io}: rename develop to master to match branch

* py-bluepyefe: unset PMI_RANK is also neuron-related

* py-bluepyopt: PMI_RANK is also neuron-related

* Implement review remarks

* py-morph-tool, py-neurom: small fixes

* py-morphio: reword dependencies
2023-10-28 07:55:49 -05:00
Manuela Kuhn
f8aa66b62e py-comm: add 0.1.4 (#40669) 2023-10-28 07:51:55 -05:00
Adam J. Stewart
a1d3e0002c py-numpy: add v1.26 (#40057) 2023-10-28 13:17:32 +02:00
John W. Parent
148dce96ed MSVC: detection from registry (#38500)
Typically MSVC is detected via the VSWhere program. However, this may
not be available, or may be installed in an unpredictable location.
This PR adds an additional approach via Windows Registry queries to
determine VS install location root.

Additionally:

* Construct vs_install_paths after class-definition time (move it to
  variable-access time).
* Skip over keys for which a user does not have read permissions
  when performing searches (previously the presence of these keys
  would have caused an error, regardless of whether they were
  needed).
* Extend helper functionality with option for regex matching on
  registry keys vs. exact string matching.
* Some internal refactoring: remove boolean parameters in some cases
  where the function was always called with the same value
  (e.g. `find_subkey`)
2023-10-27 16:58:50 -07:00
Mosè Giordano
9e01199e13 hipsycl: restrict compatibility with llvm for v0.8.0 (#40736) 2023-10-27 21:33:48 +02:00
eugeneswalker
ed7274a4d0 e4s ci stacks: add exago specs (#40712)
* e4s ci: add exago +cuda, +rocm builds

* exago: rename 5-18-2022-snapshot to snapshot.5-18-2022

* disable exago +rocm for non-external rocm ci install

* note that hiop +rocm fails to find hip libraries when they are spack-installed
2023-10-27 11:15:11 -07:00
eugeneswalker
f2963e41ba mgard@2020-10-01 %oneapi@2023: turn of c++11-narrowing via cxxflags (#40743) 2023-10-27 12:08:33 -06:00
John W. Parent
069762cd37 External finding: update default paths; treat .bat as executable on Windows (#39850)
.bat or .exe files can be considered executable on Windows. This PR
expands the regex for detectable packages to allow for the detection
of packages that vendor .bat wrappers (intel mpi for example).

Additional changes:

* Outside of Windows, when searching for executables `path_hints=None`
  was used to indicate that default path hints should be provided,
  and `[]` was taken to mean that no defaults should be chosen
  (in that case, nothing is searched); behavior on Windows has
  now been updated to match.
* Above logic for handling of `path_hints=[]`  has also been extended
  to library search (for both Linux and Windows).
* All exceptions for external packages were documented as timeout
  errors: this commit adds a distinction for other types of errors
  in warning messages to the user.
2023-10-27 10:40:44 -07:00
Harmen Stoppels
195f965076 OCI buildcache (#38358)
Credits to @ChristianKniep for advocating the idea of OCI image layers
being identical to spack buildcache tarballs.

With this you can configure an OCI registry as a buildcache:

```console 
$ spack mirror add my_registry oci://user/image # Dockerhub

$ spack mirror add my_registry oci://ghcr.io/haampie/spack-test # GHCR

$ spack mirror set --push --oci-username ... --oci-password ... my_registry  # set login credentials
```

which should result in this config:

```yaml
mirrors:
  my_registry:
    url: oci://ghcr.io/haampie/spack-test
    push:
      access_pair: [<username>, <password>]
```

It can be used like any other registry

```
spack buildcache push my_registry [specs...]
```

It will upload the Spack tarballs in parallel, as well as manifest + config
files s.t. the binaries are compatible with `docker pull` or `skopeo copy`.

In fact, a base image can be added to get a _runnable_ image:

```console
$ spack buildcache push --base-image ubuntu:23.04 my_registry python
Pushed ... as [image]:python-3.11.2-65txfcpqbmpawclvtasuog4yzmxwaoia.spack

$ docker run --rm -it [image]:python-3.11.2-65txfcpqbmpawclvtasuog4yzmxwaoia.spack
```

which should really be a game changer for sharing binaries.

Further, all content-addressable blobs that are downloaded and verified
will be cached in Spack's download cache. This should make repeated
`push` commands faster, as well as `push` followed by a separate
`update-index` command.

An end to end example of how to use this in Github Actions is here:

**https://github.com/haampie/spack-oci-buildcache-example**


TODO:

- [x] Generate environment modifications in config so PATH is set up
- [x] Enrich config with Spack's `spec` json (this is allowed in the OCI specification)
- [x] When ^ is done, add logic to create an index in say `<image>:index` by fetching all config files (using OCI distribution discovery API)
- [x] Add logic to use object storage in an OCI registry in `spack install`.
- [x] Make the user pick the base image for generated OCI images.
- [x] Update buildcache install logic to deal with absolute paths in tarballs
- [x] Merge with `spack buildcache` command
- [x] Merge #37441 (included here)
- [x] Merge #39077 (included here)
- [x] #39187 + #39285
- [x] #39341
- [x] Not a blocker: #35737 fixes correctness run env for the generated container images

NOTE:

1. `oci://` is unfortunately taken, so it's being abused in this PR to mean "oci type mirror". `skopeo` uses `docker://` which I'd like to avoid, given that classical docker v1 registries are not supported.
2. this is currently `https`-only, given that basic auth is used to login. I _could_ be convinced to allow http, but I'd prefer not to, given that for a `spack buildcache push` command multiple domains can be involved (auth server, source of base image, destination registry). Right now, no urllib http handler is added, so redirects to https and auth servers with http urls will simply result in a hard failure.

CAVEATS:

1. Signing is not implemented in this PR. `gpg --clearsign` is not the nicest solution, since (a) the spec.json is merged into the image config, which must be valid json, and (b) it would be better to sign the manifest (referencing both config/spec file and tarball) using more conventional image signing tools
2. `spack.binary_distribution.push` is not yet implemented for the OCI buildcache, only `spack buildcache push` is. This is because I'd like to always push images + deps to the registry, so that it's `docker pull`-able, whereas in `spack ci` we really wanna push an individual package without its deps to say `pr-xyz`, while its deps reside in some `develop` buildcache.
3. The `push -j ...` flag only works for OCI buildcache, not for others
2023-10-27 15:30:04 +02:00
Ashwin Kumar Karnad
3fff8be929 octopus: split netcdf-c and netcdf-fortran dependency (#40685) 2023-10-27 14:24:44 +02:00
Satish Balay
1bf758a784 strumpack: add version 7.2.0 (#40732) 2023-10-27 04:29:15 -07:00
Harmen Stoppels
9b8fb413c3 gromacs: default to external blas & lapack (#40490)
* gromacs: default to external blas & lapack

* drop vendored lapack/blas altogether
2023-10-27 09:51:12 +02:00
Harmen Stoppels
51275df0b1 ci: spack compiler find should list extra config scopes (#40727)
otherwise it detected pre-configured compilers in an potentially different way.
2023-10-27 09:43:01 +02:00
dmt4
af13d16c2c Fixes and options for package spglib (#40684)
* Fix cmake_args for spglib v2.1.0+

* Add option to build fortran interface in package spglib

* fix style as sugested by ci/prechecks/style

* Enable fortran variant from v1.16.4 as suggested

Co-authored-by: Rocco Meli <r.meli@bluemail.ch>

---------

Co-authored-by: Rocco Meli <r.meli@bluemail.ch>
2023-10-27 08:55:57 +02:00
Harmen Stoppels
37f48aff8b gromacs: fix version branch in intel fftw (#40489) 2023-10-27 08:29:02 +02:00
Alec Scott
feda52f800 akantu: use f-strings (#40466)
Co-authored-by: Nicolas Richart <nrichart@users.noreply.github.com>
2023-10-27 08:12:20 +02:00
Satish Balay
8959d65577 plasma: add version 23.8.2 (#40728) 2023-10-26 16:48:20 -06:00
Carlos Bederián
546695f193 itk: misc fixes (#39832)
* itk: patch missing include for newer compilers

* itk: The package doesn't use MPI

* itk: package requires the high-level hdf5 api

* itk: patch url with ?full_index=1

* itk: point to 4041 commit in master

* itk: don't constrain hdf5 with ~mpi
2023-10-26 15:13:27 -07:00
snehring
c3f5ee54d4 ldak: add v5.2 & add maintainer (#40710)
* ldak: update to 5.2, add maintainer

* ldak: use compiler.openmp_flag
2023-10-26 15:12:10 -07:00
Daniel Arndt
d64f312726 dataTransferKit: add v3.1.1, v3.1.0 (#40556)
* Update DataTransferKit for 3.1.1 release

* Require Trilinos-14 for 3.1.0 and higher
2023-10-26 15:10:16 -07:00
Adam J. Stewart
b4b25dec64 PythonPackage: allow archive_files to be overridden (#40694) 2023-10-26 15:25:56 -05:00
Torbjörn Lönnemark
81172f9251 curl: Fix librtmp variant (#40713)
* rtmpdump: New package

* curl: Fix librtmp variant

Add the previously missing dependency required for rtmp support.

The variant has been broken since its addition in PR #25166.

Fixes one of the two issues reported in #26887.
2023-10-26 21:11:43 +02:00
Alec Scott
cbf9dd0aee unmaintained a* packages: update to use f-strings (#40467) 2023-10-26 21:08:55 +02:00
Ryan Danehy
7ecb9243c1 Update spack package for exago@1.6.0 release (#40614)
* Update spack package for exago:1.6.0

* update style

* Weird spack style env bug fixed

* Update spack package for exago:1.6.0

* update style

* Weird spack style env bug fixed

* changes to allow release 1.6.0

* fix depends, and versioning

* rm cmake variable

* add s

* style fix

---------

Co-authored-by: Ryan Danehy <dane678@deception04.pnl.gov>
Co-authored-by: Ryan Danehy <dane678@deception03.pnl.gov>
Co-authored-by: ryan.danehy@pnnl.gov <dane678@we45149.home>
2023-10-26 11:18:31 -07:00
Harmen Stoppels
e96f31c29d spack checksum pkg@1.2, use as version filter (#39694)
* spack checksum pkg@1.2, use as version filter

Currently pkg@1.2 splits on @ and looks for 1.2 specifically, with this
PR pkg@1.2 is a filter so any matching 1.2, 1.2.1, ..., 1.2.10 version
is displayed.

* fix tests

* fix style
2023-10-26 09:57:55 -07:00
Auriane R
53d5011192 Add conflict between cxxstd > 17 and cuda < 12 in pika (#40717)
* Add conflict with C++ standard > 17 and cuda < 12

* Removing map_cxxstd since boost supports C++20 flag
2023-10-26 16:08:21 +02:00
Xavier Delaruelle
751b64cbcd modules: no --delim option if separator is colon character (#39010)
Update Tcl modulefile template to simplify generated `append-path`,
`prepend-path` and `remove-path` commands and improve their readability.

If path element delimiter is colon character, do not set the `--delim`
option as it is the default delimiter value.
2023-10-26 15:55:49 +02:00
Adam J. Stewart
f57c2501a3 PythonPackage: nested config_settings (#40693)
* PythonPackage: nested config_settings

* flake8
2023-10-26 08:18:02 -05:00
Harmen Stoppels
1c8073c21f spack checksum: show long flags in usage output (#40407) 2023-10-26 14:48:35 +02:00
Xavier Delaruelle
86520abb68 modules: hide implicit modulefiles (#36619)
Renames exclude_implicits to hide_implicits

When hide_implicits option is enabled, generate modulefile of
implicitly installed software and hide them. Even if implicit, those
modulefiles may be referred as dependency in other modulefiles thus they
should be generated to make module properly load dependent module.

A new hidden property is added to BaseConfiguration class.

To hide modulefiles, modulercs are generated along modulefiles. Such rc
files contain specific module command to indicate a module should be
hidden (for instance when using "module avail").

A modulerc property is added to TclFileLayout and LmodFileLayout classes
to get fully qualified path name of the modulerc associated to a given
modulefile.

Modulerc files will be located in each module directory, next to the
version modulefiles. This scheme is supported by both module tool
implementations.

modulerc_header and hide_cmd_format attributes are added to
TclModulefileWriter and LmodModulefileWriter. They help to know how to
generate a modulerc file with hidden commands for each module tool.

Tcl modulerc file requires an header. As we use a command introduced on
Modules 4.7 (module-hide --hidden-loaded), a version requirement is
added to header string.

For lmod, modules that open up a hierarchy are never hidden, even if
they are implicitly installed.

Modulerc is created, updated or removed when associated modulefile is
written or removed. If an implicit modulefile becomes explicit, hidden
command in modulerc for this modulefile is removed. If modulerc becomes
empty, this file is removed. Modulerc file is not rewritten when no
content change is detected.

Co-authored-by: Harmen Stoppels <me@harmenstoppels.nl>
2023-10-26 11:49:13 +00:00
Alberto Invernizzi
bf88ed45da libluv: require CMake 3 and CMP0042 (#40716) 2023-10-26 03:33:27 -06:00
Harmen Stoppels
b4cf3d9f18 git versions: fix commit shas [automated] (#40703) 2023-10-26 11:26:47 +02:00
Ben Boeckel
8e19576ec5 Paraview 5.12 prep (#40527)
* paraview: rebase the adios2 patch for 5.12-to-be

* paraview: disable fastfloat and token for 5.12-to-be

* paraview: require older protobuf for 5.12 as well

* paraview: require C++11-supporting protobuf for `master` too
2023-10-25 16:26:49 -07:00
Victoria Cherkas
3c590ad071 fdb: add releases v5.11.23 and v5.11.17 (#40571) 2023-10-25 16:24:54 -07:00
afzpatel
3e47f3f05c initial commit to fix mivisionx build for 5.6 (#40579) 2023-10-25 16:24:31 -07:00
Dominic Hofer
d9edc92119 cuda: add NVHPC_CUDA_HOME. (#40507)
* [cuda] Add NVHPC_CUDA_HOME.

* Add CUDA_HOME and NVHC_CUDA_HOME to cuda's dependent build env.

---------

Co-authored-by: Dominic Hofer <dominic.hofer@meteoswiss.ch>
2023-10-25 16:22:22 -07:00
Filippo Barbari
2a245fdd21 Added Highway versions up to 1.0.7 (#40691) 2023-10-25 15:49:46 -07:00
Adam J. Stewart
932d7a65e0 PyTorch: patch breakpad dependency (#40648) 2023-10-25 23:10:48 +02:00
dependabot[bot]
6bd2dd032b build(deps): bump pytest from 7.4.2 to 7.4.3 in /lib/spack/docs (#40697) 2023-10-25 20:58:53 +02:00
Harmen Stoppels
c0a4be156c ci: don't put compilers in config (#40700)
* ci: don't register detectable compilers

Cause they go out of sync...

* remove intel compiler, it can be detected too

* Do not run spack compiler find since compilers are registered in concretize job already

* trilinos: work around +stokhos +cuda +superlu-dist bug due to EMPTY macro
2023-10-25 11:55:04 -07:00
Harmen Stoppels
0c30418732 ci: darwin aarch64 use apple-clang-15 tag (#40706) 2023-10-25 17:35:47 +02:00
Adam J. Stewart
3063093322 py-lightning: py-torch~distributed is broken again (#40696) 2023-10-25 13:06:35 +02:00
Rocco Meli
f4bbc0dbd2 Add dlaf variant to cp2k (#40702) 2023-10-25 04:13:32 -06:00
Taillefumier Mathieu
1ecb100e43 [cp2k] Use fftw3 MKL by default when cp2k is compiled with mkl (#40671) 2023-10-25 09:55:13 +02:00
John W. Parent
e1da9339d9 Windows: search PATH for patch utility (#40513)
Previously, we only searched for `patch` inside of whatever Git
installation was available because the most common installation of Git
available on Windows had `patch`. That's not true for all possible
installations of Git though, so this updates the search to also check
PATH.
2023-10-24 16:37:26 -07:00
Alex Richert
2d203df075 Add ufs-utils@1.11.0 (#40695)
* Add ufs-utils@1.11.0
* Update package.py
2023-10-24 15:46:23 -07:00
renjithravindrankannath
50f25964cf Updating rvs binary path. (#40604)
* Updating rvs binary path
* Updating spec check as per the recommendation
2023-10-24 15:30:02 -07:00
AMD Toolchain Support
95558d67ae openmpi: fix pmi@4.2.3: compat (#40686) 2023-10-24 20:06:32 +02:00
Filippo Barbari
83532b5469 Added new benchmark version up to 1.8.3 (#40689) 2023-10-24 10:26:26 -07:00
Alberto Invernizzi
444c27ca53 neovim: conflict for libluv problem on macOS + add newer versions of neovim and libluv (#40690)
* add conflict with libluv version >=1.44 just on macOS
* minor change
* add libluv versions
* neovim: add newer releases
2023-10-24 10:21:58 -07:00
eugeneswalker
d075732cc5 hiop +cuda: fix issue 40678 (#40688) 2023-10-24 10:28:23 -06:00
eugeneswalker
cf9a32e6db exago: fix v1.5.1 tag; only allow python up to 3.10 for for @:1.5 (#40676)
* exago: fix v1.5.1 tag; only allow python up to 3.10 for for @:1.5 due to pybind error with py 3.11

* hiop@:1.0 +cuda: constrain to cuda@:11.9
2023-10-24 01:08:05 -06:00
Annop Wongwathanarat
bc54aa1e82 armpl-gcc: add version 23.10 and macOS support (#40511) 2023-10-24 00:58:04 -06:00
Nakano Masaki
88622d5129 fix installation error of bear (#40637)
Co-authored-by: Tom Scogland <scogland1@llnl.gov>
2023-10-23 13:02:15 -07:00
Vicente Bolea
d0982115b3 Adios2: add kokkos variant (#40623)
* adios2: update variants and dependencies

* adios2: add kokkos rocm|cuda|sycl variant

* e4s oneapi ci stack: add adios2 +sycl

* e4s ci stack: add adios2 +rocm

* [@spackbot] updating style on behalf of vicentebolea

* Apply suggestions from code review

* adios2: fixed cuda variant

* update ecp-data-vis-sdk

* Update share/spack/gitlab/cloud_pipelines/stacks/e4s-power/spack.yaml

---------

Co-authored-by: eugeneswalker <eugenesunsetwalker@gmail.com>
Co-authored-by: vicentebolea <vicentebolea@users.noreply.github.com>
2023-10-23 13:01:57 -07:00
Taillefumier Mathieu
1e4a5791b2 Add rccl and nccl variants to cp2k and cosma (#40451) 2023-10-23 12:37:42 -07:00
Jim Galarowicz
8def7f5583 Update survey package file for survey version 9 changes. (#40619)
* Update survey package file for survey version 9 changes.
* Fix single quote - make double.
* Small change to trigger spack tests
2023-10-23 12:31:20 -07:00
Adam J. Stewart
66f07088cb py-scikit-learn: add v1.3.2 (#40672) 2023-10-23 13:56:27 -05:00
Michael Kuhn
bf6d5df0ec audit: add check for GitLab patches (#40656)
GitLab's .patch URLs only provide abbreviated hashes, while .diff URLs
provide full hashes. There does not seem to be a parameter to force
.patch URLs to also return full hashes, so we should make sure to use
the .diff ones.
2023-10-23 20:22:39 +02:00
Olivier Cessenat
3eac79bba7 ngspice: new version 41 and option osdi (#40664) 2023-10-23 12:56:12 -04:00
Juan Miguel Carceller
47c9760492 geant4: add patch for when using the system expat library (#40650)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-10-23 16:11:51 +01:00
Harmen Stoppels
a452e8379e nghttp2: add v1.57.0 (#40652) 2023-10-23 16:22:41 +02:00
Aiden Grossman
a6466b9ddd 3proxy: respect compiler choice (#39240) 2023-10-23 03:43:54 -06:00
Harmen Stoppels
96548047f8 concretizer verbose: show progress in % too (#40654) 2023-10-23 10:26:20 +02:00
Harmen Stoppels
a675156c70 py-cython: new version, python 3.11 upperbound (#40343) 2023-10-23 09:37:20 +02:00
Tamara Dahlgren
cfc5363053 Docs: Update spec variant checks plus python quotes and string formatting (#40643) 2023-10-23 09:15:03 +02:00
Michael Kuhn
d9167834c4 libtheora: fix GitLab patch (#40657)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 09:00:22 +02:00
Michael Kuhn
8a4860480a knem: fix GitLab patch (#40662)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 08:59:58 +02:00
Michael Kuhn
f4c813f74a gobject-introspection: fix GitLab patch (#40661)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 08:59:38 +02:00
Michael Kuhn
8b4e557fed garfieldpp: fix GitLab patch (#40660)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 08:59:10 +02:00
Michael Kuhn
c5d0fd42e6 vtk: fix GitLab patch (#40659)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 08:58:47 +02:00
Michael Kuhn
428202b246 libxml2: fix GitLab patch (#40658)
GitLab's .patch URLs do not provide stable/full hashes, while .diff URLs
do. See #40656 for more information.
2023-10-23 08:58:24 +02:00
Bill Williams
1c0d3bc071 Add Score-P 8.3 and dependencies (#40478)
Includes Score-P 8.3 and Cubew/cubelib 4.8.2.
2023-10-22 22:11:19 +02:00
Juan Miguel Carceller
eea3c07628 glib: add patch with a fix for PTRACE_0_EXITKILL (#40655)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-10-22 11:18:16 -06:00
Harmen Stoppels
7cd5fcb484 zlib-ng: add v2.1.4 (#40647) 2023-10-22 11:17:48 -06:00
Juan Miguel Carceller
bbb4c939da py-kiwisolver: add a new version (#40653)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2023-10-22 09:07:31 -05:00
Tamara Dahlgren
f915489c62 Docs: Add version range example to conditional dependencies (#40630)
* Docs: Add version range example to conditional dependencies

* Add when context manager example
2023-10-22 10:52:44 +02:00
Martin Aumüller
1527853efd intel-tbb: patch patch for Apple's patch (#40640)
While e.g. GNU patch 2.7.6 (as provided by homebrew) would apply the previous
version of this patch without problems, Apple's patch 2.0-12u11-Apple fails
to find out which file to patch.

Adding two lines to the patch fixes that. Renamed the patch in order to
not require a `spack clean -m`.
2023-10-21 09:26:36 -04:00
Harmen Stoppels
d820cf73e9 py-kombu: fix setuptools bound (#40646) 2023-10-21 13:38:30 +02:00
Scott Wittenburg
8714b24420 py-kombu: pick older version of py-setuptools (#40642) 2023-10-21 08:38:03 +02:00
Lydéric Debusschère
0c18f81b80 [add] py-dict2css: new package (#40552)
Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-20 18:09:13 -06:00
Andrey Alekseenko
d442fac69a gromacs: add 2022.6, 2023.2, 2023.3 versions (#38906)
* gromacs: add 2022.6, 2023.2 versions
* gromacs: add version 2023.3
2023-10-20 17:28:45 -06:00
Kayla Butler
177976b762 Remove compiler flag propagation from concretize.lp 2023-10-20 15:02:46 -07:00
Kayla Butler
3c9bac5861 Create a separate file for compiler flag propagation 2023-10-20 12:00:05 -07:00
Garth N. Wells
76c57af021 py-fenics-ffcx: update to v0.7 (#40569) 2023-10-20 12:04:02 -05:00
Harmen Stoppels
27a0425e5d concretize separately: show concretization time per spec as they concretize when verbose (#40634) 2023-10-20 17:09:19 +02:00
Harmen Stoppels
4bade7ef96 gromacs +cp2k: build in CI (#40494)
* gromacs +cp2k: build in CI

* libxsmm: x86 only

* attempt to fix dbcsr + new mpich

* use c11 standard

* gromacs: does not depend on dbcsr

* cp2k: build with cmake in CI, s.t. dbcsr is a separate package

* cp2k: cmake patches for config files and C/C++ std

* cp2k: remove unnecessary constraints due to patch
2023-10-20 16:20:20 +02:00
Lydéric Debusschère
a0e33bf7b0 py-corner: new package (#40546)
* [add] py-corner: new package

* py-corner: remove py-wheel dependence with respect to reviewing commentary

---------

Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-20 07:37:15 -05:00
Massimiliano Culpo
cbc39977ca ASP-based solver: minimize weights over edges (#40632)
With the introduction of multiple build dependencies from the same package in the DAG, we need to minimize a few weights accounting for edges rather than nodes. If we don't do that we might have multiple "optimal" solutions that differ only in how the same nodes are connected together. This commit ensures optimal versions are picked per parent in case of multiple choices for a dependency.
2023-10-20 14:37:07 +02:00
Adam J. Stewart
06fc24df5e TensorFlow/Keras/TensorBoard: add v2.14.0 (#40297)
Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>
2023-10-20 14:23:54 +02:00
Claire Guilbaud
9543abd2d9 add recipes for sphinx-book-theme and its dependencies if unknown (#40312)
* add recipes for sphinx-book-theme and its dependencies if unknown

* fix version and mission https

* fix based on reviewers remarks
2023-10-20 07:18:41 -05:00
Lydéric Debusschère
004d3e4cca [add] py-fraction: new package (#40554)
Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-20 07:03:48 -05:00
Lydéric Debusschère
25aff66d34 [add] py-cssutils: new package (#40551)
Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-20 07:01:38 -05:00
Lydéric Debusschère
9bd77b2ed3 [add] py-css-parser: new package (#40550)
Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2023-10-20 07:00:46 -05:00
Manuela Kuhn
5de1c1c98f py-statsmodels: add 0.14.0 (#39156)
* py-statsmodels: add 0.14.0

* Fix style

* Update var/spack/repos/builtin/packages/py-statsmodels/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/py-statsmodels/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Remove python limits

* Remove comment

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-20 06:59:26 -05:00
Manuela Kuhn
5b9b5eaa28 py-dcm2bids: add v3.1.0 (#40447)
* py-dcm2bids: add 3.1.0

* Fix python restriction
2023-10-20 06:56:48 -05:00
Manuela Kuhn
00ee72396f py-bidscoin: add v4.1.1 and py-argparse-manpage: add new package (#40414)
* py-bidscoin: add 4.1.1

* Fix style

* Fix restrictions for dependencies
2023-10-20 06:55:41 -05:00
snehring
aa4d55004c Add package py-macs3 and dependencies (#40498)
* py-cykhash: adding new package py-cykhash

* py-hmmlearn: adding new package py-hmmlearn

* py-macs3: adding new package py-macs3

* py-macs3: adding python version restriction and other changes.
2023-10-20 06:53:41 -05:00
Harmen Stoppels
468f6c757e schema/compilers.py: fix validation of 2+ entries (#40627)
Fix the following syntax which validates only the first array entry:

```python
"compilers": {
    "type": "array",
    "items": [
        {
            "type": ...
        }
    ]
}
```

to

```python
"compilers": {
    "type": "array",
    "items": {
        "type": ...
    }
}
```

which validates the entire array.

Oops...
2023-10-20 09:51:49 +02:00
Adam J. Stewart
0907d43783 Drop support for external PythonX.Y (#40628)
On some systems, multiple pythonx.y are placed in the same prefix as
pythonx (where only one of them is associated with that pythonx).
Spack external detection for Python was willing to register all of
these as external versions. Moreover, the `package.py` for Python
was able to distinguish these.

This can cause an issue for some build systems, which will just look
for python3 for example, so if that python3 is actually python3.6,
and the build system needs 3.7 (which spack may have found in the
same prefix, and offered as a suitable external), it will fail when
invoking python3.

To avoid that issue, we simply avoid treating pythonx.y as external
candidates. In the above case, Spack would only detect a Python 3.6
external, and the build would be forced to use a Spack-built Python
3.7 (which we consider a good thing).
2023-10-20 00:29:38 -06:00
wspear
c9e5173bbd TAU: Respect ~fortran for +mpi (#40617) 2023-10-19 23:24:17 -06:00
Vicente Bolea
0019faaa17 vtk-m: update to latest release (#40624) 2023-10-19 18:02:25 -06:00
Lydéric Debusschère
e30f53f206 perl: change permissions in order to apply patch on version 5.38.0 (#40609)
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2023-10-20 00:00:24 +02:00
dependabot[bot]
f2ba25e09d build(deps): bump actions/checkout from 4.1.0 to 4.1.1 (#40584) 2023-10-19 23:04:40 +02:00
dependabot[bot]
405de56c71 build(deps): bump mypy from 1.6.0 to 1.6.1 in /lib/spack/docs (#40603) 2023-10-19 23:03:48 +02:00
dependabot[bot]
ba571f2404 build(deps): bump mypy from 1.6.0 to 1.6.1 in /.github/workflows/style (#40602) 2023-10-19 23:03:23 +02:00
dependabot[bot]
4c1785d5f6 build(deps): bump urllib3 from 2.0.6 to 2.0.7 in /lib/spack/docs (#40583) 2023-10-19 23:02:51 +02:00
Adam J. Stewart
fa4d5ee929 py-rasterio: add v1.3.9 (#40621) 2023-10-19 12:08:43 -07:00
Cody Balos
8720cec283 add nvechip to sundials components when mfem+rocm (#40512) 2023-10-19 12:08:24 -07:00
Harmen Stoppels
72b36ac144 Improve setup build / run / test environment (#35737)
This adds a `SetupContext` class which is responsible for setting
package.py module globals, and computing the changes to environment
variables for the build, test or run context.

The class uses `effective_deptypes` which takes a list of specs (e.g. single
item of a spec to build, or a list of environment roots) and a context
(build, run, test), and outputs a flat list of specs that affect the
environment together with a flag in what way they do so. This list is
topologically ordered from root to leaf, so that one can be assured that
dependents override variables set by dependencies, not the other way
around.

This is used to replace the logic in `modifications_from_dependencies`,
which has several issues: missing calls to `setup_run_environment`, and
the order in which operations are applied.

Further, it should improve performance a bit in certain cases, since
`effective_deptypes` run in O(v + e) time, whereas `spack env activate`
currently can take up to O(v^2 + e) time due to loops over roots. Each
edge in the DAG is visited once by calling `effective_deptypes` with
`env.concrete_roots()`.

By marking and propagating flags through the DAG, this commit also fixes
a bug where Spack wouldn't call `setup_run_environment` for runtime
dependencies of link dependencies. And this PR ensures that Spack
correctly sets up the runtime environment of direct build dependencies.

Regarding test dependencies: in a build context they are are build-time
test deps, whereas in a test context they are install-time test deps.
Since there are no means to distinguish the build/install type test deps,
they're both.

Further changes:

- all `package.py` module globals are guaranteed to be set before any of the
  `setup_(dependent)_(run|build)_env` functions is called
- traversal order during setup: first the group of externals, then the group
  of non-externals, with specs in each group traversed topological (dependencies
  are setup before dependents)
- modules: only ever call `setup_dependent_run_environment` of *direct* link/run
   type deps
- the marker in `set_module_variables_for_package` is dropped, since we should
  call the method once per spec. This allows us to set only a cheap subset of
  globals on the module: for example it's not necessary to compute the expensive
  `cmake_args` and w/e if the spec under consideration is not the root node to be
  built.
- `spack load`'s `--only` is deprecated (it has no effect now), and `spack load x`
  now means: do everything that's required for `x` to work at runtime, which
  requires runtime deps to be setup -- just like `spack env activate`.
- `spack load` no longer loads build deps (of build deps) ...
- `spack env activate` on partially installed or broken environments: this is all
  or nothing now. If some spec errors during setup of its runtime env, you'll only
  get the unconditional variables + a warning that says the runtime changes for
  specs couldn't be applied.
- Remove traversal in upward direction from `setup_dependent_*` in packages.
  Upward traversal may iterate to specs that aren't children of the roots
  (e.g. zlib / python have hundreds of dependents, only a small fraction is
  reachable from the roots. Packages should only modify the direct dependent
  they receive as an argument)
2023-10-19 20:44:05 +02:00
Harmen Stoppels
79896ee85c spack checksum: restore ability to select top n (#40531)
The ability to select the top N versions got removed in the checksum overhaul,
cause initially numbers were used for commands.

Now that we settled on characters for commands, let's make numbers pick the top
N again.
2023-10-19 11:33:01 -07:00
Vanessasaurus
408ee04014 Automated deployment to update package flux-core 2023-10-19 (#40605)
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2023-10-19 10:16:42 -07:00
Harmen Stoppels
3f594e86a1 libvorbis: drop -force_cpusubtype_ALL flag (#40616)
This flag was only relevant when targeting powerpc from apple-clang,
which we don't do. The flag is removed from apple-clang@15. Let's drop
it unconditionally.
2023-10-19 10:15:18 -07:00
Scott Wittenburg
46c1a8e4c6 gitlab ci: Rework how mirrors are configured (#39939)
Improve how mirrors are used in gitlab ci, where we have until now thought
of them as only a string.

By configuring ci mirrors ahead of time using the proposed mirror templates,
and by taking advantage of the expressiveness that spack now has for mirrors,
this PR will allow us to easily switch the protocol/url we use for fetching
binary dependencies.

This change also deprecates some gitlab functionality and marks it for
removal in Spack 0.23:

    - arguments to "spack ci generate":
        * --buildcache-destination
        * --copy-to
    - gitlab configuration options:
        * enable-artifacts-buildcache
        * temporary-storage-url-prefix
2023-10-19 11:04:59 -05:00
Satish Balay
b2d3e01fe6 petsc: add variant +sycl (#40562)
* petsc: add variant +sycl

* petsc: add in gmake as dependency - so that consistent make gets used between petsc and slepc builds [that can have different env for each of the builds]
2023-10-19 07:31:02 -07:00
Harmen Stoppels
681639985a ci: remove incorrect compilers.yaml (#40610) 2023-10-19 16:11:42 +02:00
Massimiliano Culpo
a1ca1a944a ASP-based solver: single Spec instance per dag hash (#39590)
Reused specs used to be referenced directly into the built spec.

This might cause issues like in issue 39570 where two objects in
memory represent the same node, because two reused specs were
loaded from different sources but referred to the same spec
by DAG hash.

The issue is solved by copying concrete specs to a dictionary keyed
by dag hash.
2023-10-19 16:00:45 +02:00
Tamara Dahlgren
4f49f7b9df Stand-alone test feature deprecation postponed to v0.22 (#40600) 2023-10-19 06:03:54 -06:00
Aiden Grossman
fb584853dd byte-unixbench: respect compiler choice (#39242)
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2023-10-19 02:20:34 -06:00
Aiden Grossman
cc47b06756 connect-proxy: respect compiler choice (#39243) 2023-10-19 09:58:58 +02:00
Aiden Grossman
b68a620fc2 bioawk: respect compiler choice (#39241) 2023-10-19 09:55:57 +02:00
Aiden Grossman
e417ca54a0 busybox: respect compiler choice (#39239) 2023-10-19 09:55:06 +02:00
Michael Kuhn
5bbf8454d0 julia: Fix build for @1.9 (#39045)
julia@1.9 tries to download ittapi, which requires cmake. Disable it
explicitly.
2023-10-19 09:09:45 +02:00
Annop Wongwathanarat
67b8dd0913 acfl: add version 23.10 (#40510) 2023-10-18 17:07:40 -07:00
Harmen Stoppels
a42eb0d2bd unparse: also support generic type aliases (#40328) 2023-10-18 23:16:05 +02:00
Harmen Stoppels
294e659ae8 AutotoolsPackage / MakefilePackage: add gmake build dependency (#40380) 2023-10-18 19:56:54 +02:00
Harmen Stoppels
55198c49e5 llvm: fix ncurses+termlib linking in lldb (#40594) 2023-10-18 19:04:49 +02:00
Harmen Stoppels
dc071a3995 Fix dev-build keep_stage behavior (#40576)
`spack dev-build` would incorrectly set `keep_stage=True` for the
entire DAG, including for non-dev specs, even though the dev specs
have a DIYStage which never deletes sources.
2023-10-18 11:44:26 +00:00
Lydéric Debusschère
db5d0ac6ac [fix] py-werkzeug: add constraint in python dependence (#40590)
py-werkzeug@:0.12 does not work with python@3.10:

Test with py-werkzeug 0.12.2 and python 3.10:
```
$ python3.10 -c 'import werkzeug'
py-werkzeug-0.12.2/lib/python3.11/site-packages/werkzeug/datastructures.py", line 16, in <module>
from collections import Container, Iterable, MutableSet
ImportError: cannot import name 'Container' from 'collections'
```

Test with py-werkzeug 0.12.2 and python 3.9:
```
python3.9 -c "from collections import Container"
<string>:1: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated since Python 3.3, and in 3.10 it will stop working
```
2023-10-18 13:04:21 +02:00
Aiden Grossman
2802013dc6 Add license directive (#39346)
This patch adds in a license directive to get the ball rolling on adding in license 
information about packages to spack. I'm primarily interested in just adding
license into spack, but this would also help with other efforts that people are
interested in such as adding license information to the ASP solve for 
concretization to make sure licenses are compatible.

Usage:

Specifying the specific license that a package is released under in a project's
`package.py` is good practice. To specify a license, find the SPDX identifier for
a project and then add it using the license directive:

```python
   license("<SPDX Identifier HERE>")
```

For example, for Apache 2.0, you might write:

```python
   license("Apache-2.0")
```

Note that specifying a license without a when clause makes it apply to all
versions and variants of the package, which might not actually be the case.
For example, a project might have switched licenses at some point or have
certain build configurations that include files that are licensed differently.
To account for this, you can specify when licenses should be applied. For
example, to specify that a specific license identifier should only apply
to versionup to and including 1.5, you could write the following directive:

```python
   license("MIT", when="@:1.5")
```
2023-10-18 03:58:19 -07:00
Greg Becker
37bafce384 abi.py: fix typo, add type-hints (#38216)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-10-18 11:22:55 +02:00
jfavre
da0813b049 paraview: add variant for NVIDIA IndeX (#40577)
* add variant for NVIDIA IndeX
* remove whitespaces
2023-10-17 13:03:41 -06:00
Dennis Klein
e2bb2595b3 xmlto: add more dependencies (#40578)
`xmllint` is called by `xmlto` during generation of `libzmq`'s docs, so
adding `libxml2`.

The docbook deps and the patches are taken from
https://src.fedoraproject.org/rpms/xmlto/blob/rawhide/f/xmlto.spec

There are still many more dependencies missing, but this is out of scope
of this patch (which is only concerned about the use case of `libzmq`).
2023-10-17 11:58:46 -07:00
Mikael Simberg
b7cbcfdcab Add tracy 0.10 (#40573) 2023-10-17 11:35:55 -07:00
Peter Scheibel
9cde25b39e Allow / in GitVersion (#39398)
This commit allows version specifiers to refer to git branches that contain
forward slashes. For example, the following is valid syntax now:

    pkg@git.releases/1.0
   
It also adds a new method `Spec.format_path(fmt)` which is like `Spec.format`,
but also maps unsafe characters to `_` after interpolation. The difference is
as follows:

    >>> Spec("pkg@git.releases/1.0").format("{name}/{version}")
    'pkg/git.releases/1.0'

    >>> Spec("pkg@git.releases/1.0").format_path("{name}/{version}")
    'pkg/git.releases_1.0'

The `format_path` method is used in all projections. Notice that this method
also maps `=` to `_`

    >>> Spec("pkg@git.main=1.0").format_path("{name}/{version}")
    'pkg/git.main_1.0'
   
which should avoid syntax issues when `Spec.prefix` is literally copied into a
Makefile as sometimes happens in AutotoolsPackage or MakefilePackage
2023-10-17 20:33:59 +02:00
Rocco Meli
49ea0a8e2e Add mpi_f08 variant to CP2K (#40574)
* add mpi_f08 variant
* add conflict
* add conflict with released versions of cp2k and +mpi_f08
2023-10-17 11:33:13 -07:00
Adam J. Stewart
d317ddfebe py-rtree: add v1.1.0 (#40575) 2023-10-17 11:25:18 -07:00
Cameron Rutherford
b1eef4c82d hiop: 1.0.1 release (#40580) 2023-10-17 11:14:17 -07:00
Harmen Stoppels
a4ad365de0 patchelf: fix compilation with GCC 7 (#40581) 2023-10-17 11:12:09 -07:00
wspear
8c257d55b4 Support apple-clang in pdt (#40582) 2023-10-17 11:23:15 -06:00
Harmen Stoppels
bd165ebc4d Support spack env activate --with-view <name> <env> (#40549)
Currently `spack env activate --with-view` exists, but is a no-op.

So, it is not too much of a breaking change to make this redundant flag
accept a value `spack env activate --with-view <name>` which activates
a particular view by name.

The view name is stored in `SPACK_ENV_VIEW`.

This also fixes an issue where deactivating a view that was activated
with `--without-view` possibly removes entries from PATH, since now we
keep track of whether the default view was "enabled" or not.
2023-10-17 15:40:48 +02:00
Massimiliano Culpo
348e5cb522 packages: use "requires" to allow only selected compilers (#40567)
A few packages have encoded an idiom that pre-dates the introduction
of the 'requires' directive, and they cycle over all compilers
to conflict with the ones that are not supported.

Here instead we reverse the logic, and require the ones that
are supported.
2023-10-17 08:38:06 +02:00
Patrick Bridges
7cc17f208c Creation of Beatnik package and associated updates to silo and cabana spack package (#40382)
* Added initial package for building Beatnik with spack

* Fixed github ID for Jason as a maintainer.

* Major revision of beatnik spack package to properly support GPU spack builds with CUDA (and ROCm, though that it untested)

* Marked that beatnik 1.0 will require cabana 0.6.0. We will wait for the cabana 0.6.0 release before we release beatnik

* Update to beatnik package spec to compile with hipcc when +rocm

* Updated spack package for cabana for version 0.6.0 and appropriate heffte dependency

* Updated beatnik package to require cabana 0.6.0

* More updates to cabana and beatnik to build with cabana 0.6.0

* Finish removing BLT dependence from beatnik

* More updates to beatnik package for compiling on cray systems

* Updated beatnik package for new cabana package

* Changes to silo package for new silo version

* Fixed version specs for heffte to be able to concretize and build

* Fixed spack style issues for beatnik and silo packages

* More spack formatting fixes to beatnik and silo

* Patrick adopting silo package as maintainer for now

* Should address final style changes to beatnik package spec

* Yet more style fixes.

* Perhaps this is the final style fixes? :)

* Minor fix to cabana package on required versions
2023-10-16 21:13:31 -06:00
Eric Berquist
2913cd936a Add latest versions of rlwrap (#40563)
* Add latest versions of rlwrap
* rlwrap: fix URL for v0.46.1
2023-10-16 20:28:51 -06:00
Stephen Sachs
361a185ddb intel-oneapi-compilers: ifx is located in bin not bin/intel64 (#40561)
This is a fix on top of https://github.com/spack/spack/pull/40557 .
Tagging @rscohn2 for review.
2023-10-16 20:23:46 -06:00
Seth R. Johnson
9d5615620a py-furo: new version (#40559) 2023-10-16 17:10:31 -04:00
Adam J. Stewart
ae185087e7 py-grayskull: add new package (#40293)
* py-grayskull: add new package

* [@spackbot] updating style on behalf of adamjstewart

---------

Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>
2023-10-16 15:37:50 -05:00
Massimiliano Culpo
4a96d29e69 Use string representation of deptypes for concrete specs (#40566) 2023-10-16 22:36:22 +02:00
Adam J. Stewart
1e44f33163 py-fiona: add v1.9.5 (#40497) 2023-10-16 15:34:13 -05:00
Adam J. Stewart
348493abcd py-shapely: add v2.0.2 (#40523) 2023-10-16 15:33:56 -05:00
Adam J. Stewart
2bc4bfa877 py-grpcio: cython 3 still not supported (#40537) 2023-10-16 15:33:32 -05:00
Adam J. Stewart
3e3b287761 py-lightning: add v2.1.0 (#40496) 2023-10-16 14:14:46 -05:00
renjithravindrankannath
74bbb1ef1b Updating patch to enable flag mcode-object-version=none (#40367)
* Updating patch to add flag mcode-object-version=none when
   device libs is buils as part of llvm-amdgpu
* Limiting patch to +rocm-device-libs variant and adding
   appropriate comment for the patch
* Updating llvmpatch as per the mailine code
   Updating hsa-rocr patch as per the latest code
   Updating the if elif condition for the hip test src path
* Updating flags for 5.5 relases and above
* Updating build flags and patches
2023-10-16 10:25:10 -07:00
Dom Heinzeller
22405fbb68 Fix version incompatibilities of py-pandas and py-openpyxl (#40472)
* Fix version incompatibilities of py-pandas and py-openpyxl

* Add variant excel for py-pandas

* Add package py-pyxlsb

* Add versios for py-xlsxwriter

* Define excel dependencies for py-pandas 1.4, 1.5, 2.0, 2.1

* Fix variant excel in py-pandas

* Add package py-odfpy, which is also a dependency for py-pandas@2.0:

* Rearrange excel dependencies for py-pandas

* Change url to pypi

* Add missing newline to fix style in py-odfpy
2023-10-16 10:28:38 -06:00
Diego Alvarez S
14d935bd6c Add nextflow 23.10.0 (#40547) 2023-10-16 09:06:36 -07:00
Garth N. Wells
363b9d3c7b fenics-basix: update for v0.7 (#40440)
* Uodate for Basix 0.7

* Version fix for nanobind dependency

* Simplification

* Version update and simplify dependencies

* Add comment on location of pyproject.toml

* Update var/spack/repos/builtin/packages/py-fenics-basix/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-16 08:53:02 -06:00
Stephen Sachs
8347ae3766 intel-oneapi-compilers: ifx uses --gcc-name & --gxx-name (#40557)
`ifx` uses the older syntax instead of `--gcc-toolchain`. Tested up to version
2023.2.0.
2023-10-16 10:24:21 -04:00
Garth N. Wells
1106f6b9f2 py-fenics-ufl: update version and add test (#40534)
* Update py-ufl vesion

* Syntax fix

* Syntax fix

* Add test

* Updates following comments
2023-10-16 06:52:59 -05:00
Lydéric Debusschère
e22117304e [add] py-cylc-uiserver: new recipe (#39983)
* [add] py-cylc-uiserver: new recipe

* py-cylc-uiserver: remove version constraint on the dependence python

* [fix] py-cylc-uiserver: add forgotten dependence py-graphql-core

---------

Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-16 06:51:11 -05:00
Vanessasaurus
10999c0283 fix: flux-core needs libarchive with +iconv (#40541)
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
2023-10-15 17:43:10 -06:00
Todd Gamblin
7adeee0980 README.md: tweak matrix description to indicate bridging (#40540)
This tweaks the matrix description to indicate that it's bridged with Slack. So people
don't think they're missing out (even though the icon says there are only 3 users on
Matrix).
2023-10-15 22:48:05 +00:00
Harmen Stoppels
a9cfa32c34 spack checksum: handle all versions dropped better (#40530)
* spack checksum: fix error when all versions are dropped

* add test
2023-10-15 15:08:11 -07:00
Garth N. Wells
718aa8b82f Version update and simplify dependencies (#40543) 2023-10-15 15:53:03 -06:00
Adam J. Stewart
dbf3bed380 py-torchdata: version rename (#40522) 2023-10-15 13:22:49 -07:00
Adam J. Stewart
ef55c7c916 Python: allow OneAPI 2024 when it's released (#40536) 2023-10-15 11:18:04 -06:00
Adam J. Stewart
2015d3d2bc py-click: fix Python 3.6 support (#40535) 2023-10-15 19:16:51 +02:00
Alec Scott
76bac6d4bf Add matrix space link and badge to README (#40532) 2023-10-15 09:28:08 +00:00
Miroslav Stoyanov
b960d476e3 tasmanian: patch for clang17 (#40515) 2023-10-15 00:07:15 -05:00
Veselin Dobrev
8a311d7746 mfem: add a patch for v4.6 for gcc 13, see mfem PR 3903 (#40495) 2023-10-15 00:01:53 -05:00
Miroslav Stoyanov
39d2baec8a heffte: fix rocm deps (#40514) 2023-10-14 23:55:01 -05:00
Dom Heinzeller
26e063177d Bug fixes in py-awscrt to fix build errors reported in #40386 (#40469)
* Bug fix in var/spack/repos/builtin/packages/py-awscrt/package.py: on Linux, tell aws-crt-python to use libcrypto from spack (openssl)

* Bug fix in var/spack/repos/builtin/packages/py-awscrt/package.py: add missing build dependencies cmake (for all), openssl (for linux)

* Update var/spack/repos/builtin/packages/py-awscrt/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-14 21:02:41 +00:00
Alex Richert
149d1946ee Add static support for proj (#40322)
* Add static-only option for proj

* Update proj

* update proj

* Update package.py

* [@spackbot] updating style on behalf of AlexanderRichert-NOAA

* Update package.py

* proj: Add pic and static variant support for cmake
2023-10-14 13:09:24 -05:00
Manuela Kuhn
3604f6238d py-pydicom: add 2.4.3 (#40487) 2023-10-14 13:06:51 -05:00
Manuela Kuhn
2ad9470670 py-pybids: add 0.16.3 (#40486) 2023-10-14 13:05:36 -05:00
Manuela Kuhn
8dde74854a py-cfgv: add 3.4.0 (#40465) 2023-10-14 13:03:43 -05:00
Manuela Kuhn
fa5aadbbc0 py-charset-normalizer: add 3.3.0 (#40471) 2023-10-14 12:56:59 -05:00
Manuela Kuhn
0989cb8866 py-click: add 8.1.7 (#40473) 2023-10-14 12:56:14 -05:00
Manuela Kuhn
b536260eb5 py-chardet: add 5.2.0 (#40468) 2023-10-14 12:47:01 -05:00
Manuela Kuhn
8f2de4663e py-certifi: add 2023.7.22 (#40445) 2023-10-14 12:41:34 -05:00
Manuela Kuhn
0693892521 py-bidskit: add 2023.9.7 (#40444) 2023-10-14 12:40:40 -05:00
Manuela Kuhn
3be78717d2 py-pyqt6: add 6.5.2 (#40413) 2023-10-14 12:34:45 -05:00
Sam Gillingham
655d123785 py-python-fmask: update to latest versions (#40378)
* tidy and add new version

* add comment about dependencies

* whitespace
2023-10-14 12:28:51 -05:00
Lydéric Debusschère
b8cb36ce50 [add] py-graphene-tornado: new recipe, required by py-cylc-uiserver (#39985)
* [add] py-graphene-tornado: new recipe, required by py-cylc-uiserver

* py-graphene-tornado: Taking reviewing into account

* py-graphene-tornado: add type run in dependences py-jinja, py-tornado and py-werkzeug

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-14 12:25:02 -05:00
Manuela Kuhn
bc3cd02776 py-urllib3: add 2.0.6 (#40207)
* py-urllib3: add 2.0.5

* Add py-brotli package

* Group brotli dependencies and make limits more specific

* Add minimum version limits to variants

* Remove python upper limit for py-brotli

* Fix restrictions for py-brotli dependency

* Fix py-brotli dependency

* py-urllib3: add 2.0.6
2023-10-14 12:23:54 -05:00
Seth R. Johnson
a027adcaa2 cpr: new package (#40509)
* New package: cpr

* Support libcpr version 1.9

* Fix build phase for git

* Update var/spack/repos/builtin/packages/cpr/package.py

Co-authored-by: Alec Scott <alec@bcs.sh>

* [@spackbot] updating style on behalf of sethrj

---------

Co-authored-by: Alec Scott <alec@bcs.sh>
2023-10-14 08:31:53 -07:00
Harmen Stoppels
3783032d28 screen: add v4.9.1 (#40529) 2023-10-14 08:29:55 -07:00
Harmen Stoppels
c0ac5e3f6b git: add 2.42 (#40528) 2023-10-14 08:28:52 -07:00
Michael Kuhn
87371d58d5 libbson, mongo-c-driver: add 1.24.4 (#40518) 2023-10-14 11:38:00 +02:00
Michael Kuhn
ef11fd7f75 libfuse: add 3.16.2 (#40519) 2023-10-14 11:37:07 +02:00
Michael Kuhn
d0f046e788 mariadb-c-client: add 3.3.7 (#40521) 2023-10-14 11:35:46 +02:00
Michael Kuhn
794fb9b252 rocksdb: add 8.6.7 (#40525) 2023-10-14 11:34:32 +02:00
Michael Kuhn
86c7d646c3 Fix pkgconfig dependencies (#40524)
`pkgconfig` is the correct virtual dependency.
2023-10-14 11:33:36 +02:00
Michael Kuhn
7d96077667 glib: add 2.78.0, 2.76.6 (#40517) 2023-10-14 11:33:16 +02:00
Michael Kuhn
a6fbfedc08 sqlite: add 3.43.2 (#40520) 2023-10-14 11:32:25 +02:00
Alex Richert
a6cfeabc10 cairo: add shared and pic variants (#40302) 2023-10-13 14:21:43 -06:00
Martin Aumüller
a3a29006aa wayland: dot is a build dependency (#39854)
* wayland: dot is a build dependency

otherwise this build failure happens:
../spack-src/doc/meson.build:5:6: ERROR: Program 'dot' not found or not executable

* wayland: make building of documentation optional

renders several dependencies optional
2023-10-13 21:57:13 +02:00
Harmen Stoppels
a5cb7a9816 spack checksum: improve interactive filtering (#40403)
* spack checksum: improve interactive filtering

* fix signature of executable

* Fix restart when using editor

* Don't show [x version(s) are new] when no known versions (e.g. in spack create <url>)

* Test ^D in test_checksum_interactive_quit_from_ask_each

* formatting

* colorize / skip header on invalid command

* show original total, not modified total

* use colify for command list

* Warn about possible URL changes

* show possible URL change as comment

* make mypy happy

* drop numbers

* [o]pen editor -> [e]dit
2023-10-13 19:43:22 +00:00
Gabriel Cretin
edf4aa9f52 Fpocket: fix installation (#40499)
* Fpocket: fix edit() positional args + add install()

* Remove comments

* Fix line too long

* Fix line too long

* Remove extension specification in version

Co-authored-by: Alec Scott <alec@bcs.sh>

* Use f-strings

Co-authored-by: Alec Scott <alec@bcs.sh>

* Fix styling

* Use the default MakefilePackage install stage

---------

Co-authored-by: Alec Scott <alec@bcs.sh>
2023-10-13 11:30:20 -07:00
Dom Heinzeller
02c680ec3a texinfo package: fix external detection (#40470)
A complete texinfo install includes both `info` and `makeinfo`. Some
system installations of texinfo may exclude one or the other. This
updates the external finding logic to require both.
2023-10-13 10:39:08 -07:00
David Huber
8248e180ca Add gsi-ncdiag v1.1.2 (#40508) 2023-10-13 08:48:23 -07:00
Harmen Stoppels
c9677b2465 Expand multiple build systems section (#39589)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-10-13 14:59:44 +02:00
Massimiliano Culpo
3752fe9e42 Better error message when wrong platform is used (#40492)
fixes #40299
2023-10-13 11:18:55 +02:00
Matthew Chan
8a0de10f60 containerize: update docs to activate env before using container templates (#40493) 2023-10-13 06:59:44 +00:00
Adam J. Stewart
6aa8d76e32 py-cmocean: add v3.0.3 (#40482) 2023-10-12 20:32:48 -06:00
Nils Vu
fb1d0f60d9 catch2: add +pic and +shared options (#40337)
Also add latest version
2023-10-12 20:13:01 -06:00
Martin Aumüller
728eaa515f ospray: new versions 2.11.0 and 2.12.0 (#40394)
* openimagedenoise: checksum 2.0.1
* ospray: new versions 2.11.0 and 2.12.0
  - both depend on embree@4
  - also update dependency versions for rkcommon, openvkl, openimagedenois and ispc
  - expose that dependency on openvkl is optional since @2.11 with variant "volumes"
* ospray: limit embree to @3 for ospray @:2.10
2023-10-12 14:13:15 -07:00
Julius Plehn
7c354095a9 Updates Variorum to 0.7.0 (#40488) 2023-10-12 11:27:06 -06:00
Harmen Stoppels
64ef33767f modules:prefix_inspections: allow empty dict (#40485)
Currently

```
modules:
  prefix_inspections:: {}
```

gives you the builtin defaults instead of no mapping.
2023-10-12 09:28:16 -07:00
Dennis Klein
265432f7b7 libzmq: Revert "libzmq: make location of libsodium explicit (#34553)" (#40477)
and make variants independent of upstream defaults
2023-10-12 09:15:00 -06:00
dependabot[bot]
aa7dfdb5c7 build(deps): bump python-levenshtein in /lib/spack/docs (#40461)
Bumps [python-levenshtein](https://github.com/maxbachmann/python-Levenshtein) from 0.22.0 to 0.23.0.
- [Release notes](https://github.com/maxbachmann/python-Levenshtein/releases)
- [Changelog](https://github.com/maxbachmann/python-Levenshtein/blob/main/HISTORY.md)
- [Commits](https://github.com/maxbachmann/python-Levenshtein/compare/v0.22.0...v0.23.0)

---
updated-dependencies:
- dependency-name: python-levenshtein
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-12 14:38:33 +00:00
Alec Scott
bfe37435a4 go: add v1.21.3 and deprecate previous versions due to CVE-2023-39533 (#40454) 2023-10-12 07:40:04 -06:00
Adam J. Stewart
285a50f862 PyTorch: fix build with Xcode 15 (#40460) 2023-10-12 07:27:03 -06:00
Harmen Stoppels
995e82e72b gettext: Add 0.22.3 and fix keyerror: "shared" (#39423)
After the merge of #37957 (Add static and pic variants), if a gettext install
from a build before that merge is present, building any package using gettext
fails with keyerror: "shared" because the use of self.spec.variants["shared"]
does not check for the presence of the new variant in the old installation
but expects that the new key variants["shared"] exists always.

Fix it with a fallback to the default of True and update gettext to v22.3

Co-authored-by: Bernharad Kaindl <43588962+bernhardkaindl@users.noreply.github.com>
2023-10-12 04:40:38 -06:00
Massimiliano Culpo
3935e047c6 Remove deprecated "extra_instructions" option for containers (#40365) 2023-10-12 12:12:15 +02:00
Harmen Stoppels
0fd2427d9b clingo: fix build with Python 3.12 (#40154) 2023-10-12 12:11:22 +02:00
Alec Scott
30d29d0201 acfl: use f-strings (#40433) 2023-10-12 11:30:22 +02:00
Tim Haines
3e1f2392d4 must: add versions 1.8.0 and 1.9.0 (#40141) 2023-10-11 22:34:22 -07:00
Lydéric Debusschère
6a12a40208 [add] py-cylc-rose: new recipe (#39980)
* [add] py-cylc-rose: new recipe

* py-cylc-rose: update recipe

---------

Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-11 22:31:46 -07:00
Leonhard Reichenbach
90e73391c2 opendatadetector: add version v3.0.0 (#39693) 2023-10-11 22:29:00 -07:00
Alec Scott
deec1b7c2e adios2: use f-strings (#40437) 2023-10-11 21:08:00 -06:00
Scott Wittenburg
d9cb1a1070 buildcache: Tell servers not to cache index or hash (#40339) 2023-10-11 18:13:57 -06:00
afzpatel
01747b50df fix ck build for 5.6.1 (#40304)
* initial commit to fix ck build for 5.6.1
* disable mlir for miopen-hip
* use satisfies for checking specs and add nlohmann-json dependency for 5.4 onwards
2023-10-11 14:43:21 -07:00
Alex Richert
df01a11e07 apr-util: Fix spack install apr-util +crypto ^openssl~shared (#40301) 2023-10-11 23:38:28 +02:00
Victor Brunini
7a4b479724 cmake: drop CMAKE_STATIC_LINKER_FLAGS (#40423)
Because those end up being passed to ar which does not understand linker
arguments. This was making ldflags largely unusuable for statically
linked cmake packages.
2023-10-11 23:30:44 +02:00
Harmen Stoppels
89e34d56a1 curl: add v8.4.0, allow r@8.3: to use it (#40442)
* curl: 8.4.0

* fix r curl upperbound range
2023-10-11 21:04:09 +02:00
Miroslav Stoyanov
a5853ee51a update for the tasmanain versions (#40453) 2023-10-11 12:33:31 -06:00
Alec Scott
537ab48167 acts: use f-strings (#40434) 2023-10-11 11:03:30 -07:00
Alec Scott
e43a090877 abduco: use f-string (#40432) 2023-10-11 19:51:26 +02:00
Alec Scott
275a2f35b5 adiak: use f-strings (#40435) 2023-10-11 10:48:39 -07:00
Alec Scott
dae746bb96 abacus: use f-string (#40431) 2023-10-11 19:48:32 +02:00
Alec Scott
3923b81d87 adios: use f-strings (#40436) 2023-10-11 10:47:42 -07:00
Alec Scott
5d582a5e48 7zip: use f-strings (#40430) 2023-10-11 19:46:23 +02:00
Alec Scott
7dbc712fba 3proxy: use f-strings (#40429) 2023-10-11 19:44:57 +02:00
Alec Scott
639ef9e24a adol-c: use f-strings (#40438) 2023-10-11 10:43:31 -07:00
Alex Richert
86d2200523 krb5: Fix spack install krb5 ^openssl~shared (#40306) 2023-10-11 19:37:48 +02:00
Massimiliano Culpo
fe6860e0d7 cmake: add v3.27.7 (#40441) 2023-10-11 10:20:49 -07:00
Manuela Kuhn
8f2e68aeb8 c-blosc2: add 2.10.5 (#40428) 2023-10-11 19:19:58 +02:00
Laura Weber
bc4c887452 tecplot: Add version 2023r1 (#40425) 2023-10-11 10:05:37 -07:00
Alec Scott
b3534b4435 restic: add v0.16.0 (#40439) 2023-10-11 19:04:26 +02:00
Massimiliano Culpo
861bb4d35a Update bootstrap buildcache to support Python 3.12 (#40404)
* Add support for Python 3.12
* Use optimized build of clingo
2023-10-11 19:03:17 +02:00
Harmen Stoppels
65e7ec0509 spider: respect <base> tag (#40443) 2023-10-11 08:49:50 -07:00
Manuela Kuhn
1ab8886695 qt-base: fix-build without opengl (#40421) 2023-10-11 08:56:59 -04:00
dependabot[bot]
26136c337f build(deps): bump mypy from 1.5.1 to 1.6.0 in /.github/workflows/style (#40422)
Bumps [mypy](https://github.com/python/mypy) from 1.5.1 to 1.6.0.
- [Commits](https://github.com/python/mypy/compare/v1.5.1...v1.6.0)

---
updated-dependencies:
- dependency-name: mypy
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-11 06:35:51 -06:00
dependabot[bot]
e3b71b32aa build(deps): bump mypy from 1.5.1 to 1.6.0 in /lib/spack/docs (#40424)
Bumps [mypy](https://github.com/python/mypy) from 1.5.1 to 1.6.0.
- [Commits](https://github.com/python/mypy/compare/v1.5.1...v1.6.0)

---
updated-dependencies:
- dependency-name: mypy
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-11 12:35:41 +00:00
Alec Scott
6d1711f4c2 Update legacy .format() calls to fstrings in installer.py (#40426) 2023-10-11 12:35:37 +00:00
Massimiliano Culpo
26f291ef25 spack buildcache: fix a typo in a function call (#40446)
fixes #40415
2023-10-11 13:09:21 +02:00
Martin Aumüller
da030617a1 botan: checksum 3.2.0 (#40417) 2023-10-10 21:52:51 -06:00
Martin Aumüller
1ebfcd3b18 openvkl: add 1.3.2 (#40392)
* openvkl: add 1.3.2

works with (and requires) embree@4

* openvkl: simplify formatting with f-string

thank you for the suggestion in the review
2023-10-10 21:24:17 -06:00
Edward Hartnett
d385a57da3 w3emc: add v2.11.0 (#40376)
* added version 2.11.0

* more fixes
2023-10-10 15:11:14 -07:00
eugeneswalker
37df8bfc73 e4s arm stack: duplicate and target neoverse v1 (#40369)
* e4s arm stack: duplicate and target both neoverse n1, v1

* remove neoverse_n1 target until issue #40397 is resolved
2023-10-10 14:32:51 -07:00
Adam J. Stewart
b781a530a1 GCC: fix build with Apple Clang 15 (#40318) 2023-10-10 22:35:15 +02:00
Harmen Stoppels
390b0aa25c More helpful error when patch lookup fails (#40379) 2023-10-10 21:09:04 +02:00
Adam J. Stewart
620835e30c py-jupyter-packaging: remove duplicate packages (#38671)
* py-jupyter-packaging: remove duplicate packages

* Allow py-jupyter-packaging to be duplicated in DAG

* Deprecate version of py-jupyterlab that requires py-jupyter-packaging at run-time
2023-10-10 13:50:22 -05:00
Adam J. Stewart
da10487219 Update PyTorch ecosystem (#40321)
* Update PyTorch ecosystem

* py-pybind11: better documentation of supported compilers

* py-torchdata: add v0.7.0

* Black fixes

* py-torchtext: fix Python reqs

* py-horovod: py-torch 2.1.0 not yet supported
2023-10-10 13:45:32 -05:00
Miroslav Stoyanov
4d51810888 find rocm fix (#40388)
* find rocm fix
* format fix
* style fix
* formatting is broken
2023-10-10 10:42:26 -07:00
Harmen Stoppels
6c7b2e1056 git: optimize build by not setting CFLAGS (#40387) 2023-10-10 11:48:06 +02:00
Carlos Bederián
749e99bf11 python: add 3.11.6 (#40384) 2023-10-10 09:53:04 +02:00
Martin Aumüller
6db8e0a61e embree: checksum 4.3.0 (#40395) 2023-10-09 20:44:10 -06:00
Martin Aumüller
6fe914421a rkcommon: checksum 0.11.0 (#40391) 2023-10-09 20:43:56 -06:00
Andrew W Elble
9275f180bb openmm: new version 8.0.0 (#40396) 2023-10-09 20:33:40 -06:00
Tom Epperly
2541b42fc2 Add a new release sha256 hash (#37680) 2023-10-09 20:28:45 -06:00
Auriane R
fb340f130b Add pika 0.19.1 (#40385) 2023-10-09 20:23:54 -06:00
Dennis Klein
d2ddd99ef6 libzmq: add v4.3.5 (#40383) 2023-10-09 17:30:46 -06:00
kenche-linaro
492a8111b9 linaro-forge: added package file for rebranded product (#39587) 2023-10-09 12:14:14 -07:00
George Young
d846664165 paintor: new package @3.0 (#40359)
* paintor: new package @3.0
* Update var/spack/repos/builtin/packages/paintor/package.py
---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-10-09 09:54:44 -07:00
Vanessasaurus
31b3e4898b Add: flux-pmix 0.4.0 (#40323)
* Automated deployment to update package flux-pmix 2023-10-05

* Pin exactly to flux-core 0.49.0 when between 0.3 and 0.4

* Update var/spack/repos/builtin/packages/flux-pmix/package.py

Co-authored-by: Mark Grondona <mark.grondona@gmail.com>

* Update var/spack/repos/builtin/packages/flux-pmix/package.py

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>

---------

Co-authored-by: github-actions <github-actions@users.noreply.github.com>
Co-authored-by: Mark Grondona <mark.grondona@gmail.com>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-10-09 09:29:18 -07:00
Harmen Stoppels
82f1267486 unparse: drop python 3.3 remnants (#40331) 2023-10-09 08:22:27 -07:00
Harmen Stoppels
19202b2528 docs: update Spack prerequisites (#40381) 2023-10-09 13:41:36 +00:00
Adam J. Stewart
831cbec71f py-pydevtool: add new package (#40377) 2023-10-09 15:09:59 +02:00
Patrick Broderick
bb2ff802e2 fftx: add v1.1.3 (#40283) 2023-10-09 15:06:59 +02:00
dependabot[bot]
83e9537f57 build(deps): bump python-levenshtein in /lib/spack/docs (#40220)
Bumps [python-levenshtein](https://github.com/maxbachmann/python-Levenshtein) from 0.21.1 to 0.22.0.
- [Release notes](https://github.com/maxbachmann/python-Levenshtein/releases)
- [Changelog](https://github.com/maxbachmann/python-Levenshtein/blob/main/HISTORY.md)
- [Commits](https://github.com/maxbachmann/python-Levenshtein/compare/v0.21.1...v0.22.0)

---
updated-dependencies:
- dependency-name: python-levenshtein
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-09 15:02:14 +02:00
Gavin John
3488e83deb py-s3cmd: Add new versions (#40212)
* Add new versions of py-s3cmd

* Use correct hashes
2023-10-09 07:46:38 -05:00
Jacob King
c116eee921 nimrod-aai: add v23.9. (#40303) 2023-10-09 14:39:40 +02:00
Adam J. Stewart
9cb291b41b py-jsonargparse: add v4.25.0 (#40185) 2023-10-09 14:33:45 +02:00
Thomas Dickerson
c0f1072dc7 racket packages: fix typo after multiple build systems support (#40088) 2023-10-09 14:21:13 +02:00
Jordan Galby
3108036533 elfutils: fix +debuginfod again with new libarchive versions (#40314) 2023-10-09 14:17:58 +02:00
Mike Renfro
215c699307 velvet: improved variants (#40225) 2023-10-09 12:47:54 +02:00
jmuddnv
f609093c6e Adding NVIDIA HPC SDK 23.9 (#40371) 2023-10-09 12:35:59 +02:00
Joe Schoonover
eb4fd98f09 feq-parse: add v2.0.3 (#40230) 2023-10-09 12:31:23 +02:00
Harmen Stoppels
08da9a854a parser: use non-capturing groups (#40373) 2023-10-09 07:18:27 +02:00
Mark (he/his) C. Miller
3a18fe04cc Update CITATION.cff with conf dates (#40375)
Add `start-date` and `end-date` to citation
2023-10-08 18:04:25 -07:00
Harmen Stoppels
512e41a84a py-setuptools: sdist + rpath patch backport (#40205) 2023-10-08 11:47:36 -06:00
Alex Richert
8089aedde1 gettext: Add static and pic options (#37957) 2023-10-08 17:42:21 +02:00
Manuela Kuhn
6b9e103305 py-tables: add 3.9.0 (#40340)
* py-tables: add 3.9.0

* Add conflict with apple-clang
2023-10-08 10:28:13 -05:00
Jen Herting
00396fbe6c [py-tokenizers] added version 0.13.3 (#40360) 2023-10-08 10:27:18 -05:00
Jen Herting
a3be9cb853 [py-tensorboardx] Added version 2.6.2.2 (#39731)
* [py-tensorboardx] Added version 2.6.2.2

* [py-tensorboardx] flake8

* [py-tensorboardx] requires py-setuptools-scm
2023-10-08 10:21:55 -05:00
Jen Herting
81f58229ab py-torch-sparse: add v0.6.17 (#39495)
* [py-torch-sparse] New version 0.6.17

* [py-torch-sparse] added dependency on parallel-hashmap

* [py-torch-sparse]

- spack only supports python@3.7:
- py-pytest-runner only needed with old versions
2023-10-08 10:20:46 -05:00
Jen Herting
2eb16a8ea2 [py-lvis] New package (#39080)
* [py-lvis] New package

* [py-lvis] flake8

* [py-lvis] os agnostic

* [py-lvis] added comment for imported dependency

* [py-lvis] style fix
2023-10-08 10:18:01 -05:00
Manuela Kuhn
9db782f8d9 py-bids-validator: add 1.13.1 (#40356)
* py-bids-validator: add 1.13.1

* Fix style
2023-10-08 10:16:08 -05:00
Lydéric Debusschère
633df54520 [add] py-cylc-flow: new recipe (#39986)
* [add] py-cylc-flow: new recipe

* py-cylc-flow: fix py-protobuf version

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* py-cylc-flow: fix py-colorama version

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* py-cylc-flow: Update dependence on py-aiofiles

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* py-cylc-flow: Update dependence on py-pyzmq

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* py-cylcflow: remove useless dependence

* py-cylc-flow: fix indent

* py-cylc-flow: fix argument in depends_on; move lines

* py-cylc-flow: fix the type of the dependence py-setuptools

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-08 10:06:13 -05:00
Mark (he/his) C. Miller
e2a7f2ee9a Update CITATION.cff (#40363)
You will note the `Cite this repository` link is not working.

This commit fixes the underlying file...

* `authors` was not indented
* `authors` required by `preferred-citation`
* `authors` list required at top level (I simply duplicated)
* `"USA"` not correct country code
* `month` requires an integer month number
* Added URL to the actual pdf of the cited paper
* Used `identifiers` for doi and LLNL doc number
* added `abstract` copied from paper

Various fixes were confirmed by `cffconvert` using `docker run -v `pwd`:/app citationcff/cffconvert --validate`
2023-10-07 17:44:31 -07:00
Massimiliano Culpo
28c49930e2 Remove warning for custom module configuration, when no module is enabled (#40358)
The warning was added in v0.20 and was slated for removal in v0.21
2023-10-07 09:21:04 +02:00
Ken Raffenetti
6c1868f8ae yaksa: add version 0.3 (#40368) 2023-10-06 22:28:15 -06:00
Massimiliano Culpo
4f992475f4 Python add v3.11.5 (#40330) 2023-10-06 18:03:00 -06:00
Alex Richert
7a358c9005 Change 'exit' to 'return' in setup-env.sh (#36137)
* Change 'exit' to 'return' in `setup-env.sh` to avoid losing shell in some cases when sourcing twice.
2023-10-06 16:19:19 -07:00
Veselin Dobrev
b5079614b0 MFEM: add new version v4.6 (#40170)
* [mfem] Initial changes for v4.6

* [@spackbot] updating style on behalf of v-dobrev

* [mfem] Set the proper download link for v4.6
2023-10-06 15:31:23 -07:00
Alex Richert
482525d0f9 Update bufr recipe (#40033)
* Update bufr recipe
* Add v12.0.1
* style fixes
* remove test-related functionality for bufr
* Re-add testing

---------

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-10-06 15:04:51 -07:00
snehring
599220924d wise2: adding new package wise2 (#40341) 2023-10-06 14:24:44 -07:00
Harmen Stoppels
d341be83e5 VersionRange: improve error message for empty range (#40345) 2023-10-06 14:19:49 -07:00
George Young
b027d7d0de metal: new package @2020-05-05 (#40355)
* metal: new package
* style

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-10-06 14:14:45 -07:00
Howard Pritchard
0357df0c8b openmpi: add 4.1.6 release (#40361)
related to #40232

Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2023-10-06 13:06:37 -07:00
Edward Hartnett
f70ae6e3c4 g2: updated for 3.4.8 release (#40366)
* updated for 3.4.8 release
2023-10-06 13:02:17 -07:00
Manuela Kuhn
921ed1c21b py-expecttest: new package (#40347) 2023-10-06 14:34:47 -05:00
Manuela Kuhn
c95d43771a py-asttokens: add 2.4.0 (#40349) 2023-10-06 14:33:56 -05:00
Manuela Kuhn
db3d816f8b py-argcomplete: add 3.1.2 (#40348) 2023-10-06 14:32:21 -05:00
Manuela Kuhn
1d6a142608 py-anyio: add 4.0.0 (#40346) 2023-10-06 14:27:53 -05:00
George Young
98271c3712 topaz: new package @0.2.5 (#40352)
* topaz: new package @0.2.5

* switching over to pypi

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-10-06 13:00:03 -06:00
Manuela Kuhn
e3f6df884e py-zipp: add 3.17.0 (#40278)
* py-zipp: add 3.17.0

* Re-add python@3.7 dependency
2023-10-06 13:54:25 -05:00
Sam Gillingham
b0f36b2cd9 RIOS: add recent versions (#40243)
* add recent versions of RIOS

* fix depends_on syntax

* fix typo

* fix sha and add parallel variant

* remove self

* try doing in one
2023-10-06 13:52:15 -05:00
Lydéric Debusschère
5524492e25 [add] py-metomi-rose: new recipe, required by py-cylc-rose (#39981)
* [add] py-metomi-rose: new recipe, required by py-cylc-rose

* py-metomi-rose: remove version constraint on python

---------

Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-06 13:49:59 -05:00
Sam Gillingham
112f045352 py-tuiview: add recent versions of tuiview (#40244)
* add recent versions of tuiview and remove Qt4 version

* reformat

* fix stray tabs

* add back a deprecated 1.1.7

* tabs

* more tabs

* reformat

* comma
2023-10-06 13:49:06 -05:00
Harmen Stoppels
72ed8711a7 unparse: drop python 2 remnants (#40329) 2023-10-06 09:42:47 -07:00
Harmen Stoppels
55e0c2c900 openssh: 9.5p1 (#40354) 2023-10-06 09:37:42 -07:00
Massimiliano Culpo
e20c05fcdf Make "minimal" the default duplicate strategy (#39621)
* Allow branching out of the "generic build" unification set

For cases like the one in https://github.com/spack/spack/pull/39661
we need to relax rules on unification sets.

The issue is that, right now, nodes in the "generic build" unification
set are unified together with their build dependencies. This was done
out of caution to avoid the risk of circular dependencies, which would
ultimately cause a very slow solve.

For build-tools like Cython, however, the build dependencies is masked
by a long chain of "build, run" dependencies that belong in the
"generic build" unification space.

To allow splitting on cases like this, we relax the rule disallowing
branching out of the "generic build" unification set.

* Fix issue with pure build virtual dependencies

Pure build virtual dependencies were not accounted properly in the
list of possible virtuals. This caused some facts connecting virtuals
to the corresponding providers to not be emitted, and in the end
lead to unsat problems.

* Fixed a few issues in packages

py-gevent: restore dependency on py-cython@3
jsoncpp: fix typo in build dependency
ecp-data-vis-sdk: update spack.yaml and cmake recipe
py-statsmodels: add v0.13.5

* Make dependency on "blt" of type "build"
2023-10-06 10:24:21 +02:00
Harmen Stoppels
36183eac40 python: add 3.12.0 (but keep 3.11 preferred) (#40282) 2023-10-06 09:44:09 +02:00
Alex Richert
7254c76b68 ecFlow update (#40305)
* Support static openssl for ecflow

* Update ecflow/static openssl

* Update ssl settings in ecflow

* add pic variant for ecflow

* style fix

* Update package.py

* Update package.py
2023-10-05 20:04:44 -07:00
Kayla Butler
b8c373f51e Check all dependencies for test 2023-10-05 11:03:48 -07:00
eugeneswalker
e0e6ff5a68 Revert "cray rhel: disable due to runner issues (#40324)" (#40335)
This reverts commit bf7f54449b.
2023-10-05 10:32:52 -07:00
snehring
b0d49d4973 pbmpi: adding new version and maintainer (#40319) 2023-10-05 10:13:50 -07:00
Harmen Stoppels
4ce5d14066 unparse: drop python 3.4 remnants (#40333) 2023-10-05 09:52:23 -07:00
Kayla Butler
a27da63d3e Change test to widen spec checks 2023-10-05 09:41:07 -07:00
Kayla Butler
8a825667e4 Specify that Packages are PackageNodes 2023-10-05 09:25:58 -07:00
Thomas Madlener
9e9653ac58 whizard: Make sure to detect LCIO if requested (#40316) 2023-10-05 08:53:56 -07:00
Auriane R
bec873aec9 Add pika 0.19.0 (#40313) 2023-10-05 09:34:22 +02:00
Harmen Stoppels
bf7f54449b cray rhel: disable due to runner issues (#40324) 2023-10-05 08:45:33 +02:00
Cameron Rutherford
9f0e3c0fed exago: add and logging variant. (#40188) 2023-10-05 06:57:17 +02:00
eugeneswalker
79e7da9420 trilinos: add variant to build tests (#40284)
* trilinos: add variant: testing

* trilinos: rename +testing to +test
2023-10-04 16:32:30 -05:00
Harmen Stoppels
0f43074f3e Improve build isolation in PythonPipBuilder (#40224)
We run pip with `--no-build-isolation` because we don't wanna let pip
install build deps.

As a consequence, when pip runs hooks, it runs hooks of *any* package it
can find in `sys.path`.

For Spack-built Python this includes user site packages -- there
shouldn't be any system site packages. So in this case it suffices to
set the environment variable PYTHONNOUSERSITE=1.

For external Python, more needs to be done, cause there is no env
variable that disables both system and user site packages; setting the
`python -S` flag doesn't work because pip runs subprocesses that don't
inherit this flag (and there is no API to know if -S was passed)

So, for external Python, an empty venv is created before invoking pip in
Spack's build env ensures that pip can no longer see anything but
standard libraries and `PYTHONPATH`.

The downside of this is that pip will generate shebangs that point to
the python executable from the venv. So, for external python an extra
step is necessary where we fix up shebangs post install.
2023-10-04 14:38:50 -05:00
Ken Raffenetti
d297098504 yaksa: Allow unsupported host compiler with CUDA (#40298)
Fixes #40272.
2023-10-04 09:37:58 -07:00
Josh Bowden
284eaf1afe Damaris release v1.9.2 (#40285)
* Update to latest dot versions and improved installation of Damaris python module damaris4py

* fix for visit dependency typo

* whitespace check

* whitespace check

* fix for style issue

* reviewer suggestions for integrating Python added

* suggestion for boost depends statement added
2023-10-04 09:34:43 -06:00
Dom Heinzeller
da637dba84 Add new package awscli-v2 and its missing dependency awscrt (#40288)
* Add new package awscli-v2 and its missing dependency awscrt

* Remove boilerplate comments from awscli-v2 and awscrt packages

* Fix typos in var/spack/repos/builtin/packages/awscli-v2/package.py

* Update var/spack/repos/builtin/packages/awscli-v2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/awscli-v2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/awscli-v2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/awscli-v2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/awscli-v2/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Address reviewer comments

* Remove py-pip version dependency from var/spack/repos/builtin/packages/awscli-v2/package.py

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-04 09:34:23 -06:00
Harmen Stoppels
931fce2c24 py-isort: needs setuptools build dep before v5 (#40234)
* py-isort: needs setuptools build dep before v5

Detected in #40224.

In the past, system setuptools could be picked up when using an external
python, so py-isort@4 would install fine. With the linked PR, pip can
only consider packages that Spack controls from PYTHONPATH, so the issue
of missing py-setuptools showed up.

* py-importlib-metadata: fix lowerbounds on python

* review

* py-isort unconditionally add optional setuptools dep to prevent picking up user package at runtime

* style

* drop optional py-setuptools run dep
2023-10-04 03:31:46 -06:00
Adam J. Stewart
42fbf17c82 py-einops: add v0.7.0 (#40296) 2023-10-04 04:28:49 -05:00
Harmen Stoppels
d9cacf664c petsc: add conflict on rocm 5.6: for now (#40300)
hipsparse@5.6.0 changed hipsparseSpSV_solve() API, but reverted in 5.6.1
2023-10-04 09:59:59 +02:00
Scott Wittenburg
7bf6780de2 ci: pull E4S images from github instead of dockerhub (#40307) 2023-10-04 09:55:06 +02:00
eugeneswalker
91178d40f3 e4s arm: disable bricks due to target=aarch64 not being respected (#40308) 2023-10-04 09:51:14 +02:00
kwryankrattiger
2817cd2936 ADIOS2: v2.8 is not compatible with HDF5 v1.14: (#40258) 2023-10-03 16:45:24 -05:00
Scott Wittenburg
92a6ddcbc3 ci: Change how job names appear in gitlab (#39963) 2023-10-03 15:16:41 -06:00
Sinan
58017f484c fix_qgis_build_with_pysip5 (#39941)
* fix_qgis_build_with_pysip5

* build fails with newer protobuf

* somehow findgdal can figure this out.

* Update var/spack/repos/builtin/packages/qgis/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* fix gdal lib again

* qgis needs QtPositioning provided by qt+location option

* fix FindPyQt5 cmake file

* fix bug

* fix qsci sip issue

* fix bug

* blackify

* improve

* add latest LTR

* add build dep

* revert until bug is fixed

* specify proj version for qgis 3.28

* improve gdal libs search via indicating gdal-config

* make flake happy

* improve deps

* add 3.28.11, improve style

* fix style

* [@spackbot] updating style on behalf of Sinan81

---------

Co-authored-by: Sinan81 <Sinan@world>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Sinan81 <Sinan81@users.noreply.github.com>
2023-10-03 14:21:51 -05:00
George Young
86d2e1af97 falco: new package @1.2.1 (#40289)
* falco: new package @1.2.1
* specifying gmake
* Replacing homepage - readthedocs is empty

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-10-03 11:26:49 -07:00
Adam J. Stewart
bf23be291b py-tables: add v3.8.0 (#40295) 2023-10-03 11:12:55 -07:00
Lydéric Debusschère
3b32a9918c [add] py-graphene: new recipe, required by py-cylc-flow (#39988) 2023-10-03 11:21:36 -06:00
Jordan Galby
f0260c84b4 Fix binutils regression on +gas~ld fix (#40292) 2023-10-03 17:28:55 +02:00
eugeneswalker
8746c75db0 e4s ci stacks: sync with e4s-23.08 (#40263)
* e4s amd64 gcc ci stack: sync with e4s-23.08

* e4s amd64 oneapi ci stack: sync with e4s-23.08

* e4s ppc64 gcc ci stack: sync with e4s-23.08

* add new ci stack: e4s amd64 gcc w/ external rocm

* add new ci stack: e4s arm gcc ci

* updates

* py-scipy: -fvisibility issue is resolved in 2023.1.0: #39464

* paraview oneapi fails

* comment out pkgs that fail to build on power

* fix arm stack name

* fix cabana +cuda specification

* comment out failing spces

* visit fails build on arm

* comment out slepc arm builds due to make issue

* comment out failing dealii arm builds
2023-10-03 08:12:51 -07:00
Gavin John
e8f230199f py-biom-format: Fix package file issues and bring up to date (#39962)
* Fix python versioning issue for py-biom-format

* Update deps according to feedback

* Remove version requirement for py-cython

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Only depend on py-six for versions >=2.1.10

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* Add py-future as non-dependency for 2.1.15

* There we are. Everything anyone could ever want

* Missed cython version change

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-03 09:55:15 -05:00
GeorgeJuniorGG
1e3c7abc1c Adding dynaconf module (#39762)
* Adding dynaconf module

* Fixing style

* Adding dependency
2023-10-03 06:23:29 -05:00
Manuela Kuhn
12e51da102 py-yarl: add 1.9.2 (#40277) 2023-10-03 06:22:20 -05:00
Tom Payerle
992291c738 py-dipy: Update version to support python@3.10 (#40229)
* py-dipy: Update version to support python@3.10

py-dipy only adds support to python@3.10 in py-dipy@1.5.0

See #40228

* py-dipy: fix formatting issues

* py-dipy: another formatting fix

* py-dipy: Use depends instead of conflicts

* py-dipy: formatting fix

* py-dipy: Updating for @1.7.0

Added new minimum version requirements for
py-cython
py-numpy
py-scipy
py-h5py
as suggested by @manuelakuhn
(py-nibabel min version unchanged for @1.7.0)
2023-10-03 06:10:14 -05:00
Manuela Kuhn
78e63fa257 py-wcwidth: add 0.2.7 (#40256) 2023-10-03 06:04:30 -05:00
Manuela Kuhn
487ea8b263 py-virtualenv: add 20.24.5 (#40255)
* py-virtualenv: add 20.22.0

* py-platformdirs: add 3.5.3

* py-filelock: add 3.12.4

* py-distlib: add 0.3.7
2023-10-03 06:03:35 -05:00
Manuela Kuhn
0d877b4184 py-websocket-client: add 1.6.3 (#40274) 2023-10-03 05:58:53 -05:00
Manuela Kuhn
994544f208 py-werkzeug: add 2.3.7 and 3.0.0 (#40275) 2023-10-03 05:57:27 -05:00
Manuela Kuhn
36bb2a5d09 py-wrapt: add 1.15.0 (#40276) 2023-10-03 05:55:28 -05:00
Stephen Hudson
071c1c38dc py-libEnsemble: add v1.0.0 (#40203)
* py-libEnsemble: add v1.0.0

* Add version ranges for deps

* Add comments to variants

* Put when before type

* Fix line lengths

* Re-format

* Update var/spack/repos/builtin/packages/py-libensemble/package.py

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* Update var/spack/repos/builtin/packages/py-libensemble/package.py

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

---------

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
2023-10-03 05:48:17 -05:00
Lydéric Debusschère
b480ae2b7d [add] py-graphql-relay: new package (#39807)
* [add] py-graphql-relay: new package

* py-graphql-relay: Update package.py

Remove leftovers from version 3.2.0:
* archive name in pypi
* dependencies

* [fix] py-graphql-relay: remove constraint on python version; add dependence py-rx because of ModuleNotFoundError during spack test

* [fix] py-graphql-relay: remove py-rx dependence; py-graphql-core: add dependencies for version 2.3.2

* py-graphql-core: Update from review; set build backend, py-poetry for version 3: and py-setuptools for version 2

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-03 05:45:06 -05:00
Lydéric Debusschère
7a390f503d [add] py-metomi-isodatetime: new recipe, required by py-cylc-flow (#39990)
* [add] py-metomi-isodatetime: new recipe, required by py-cylc-flow

* py-metomi-isodatetime: use sources from pypi instead of github
2023-10-03 05:42:46 -05:00
dependabot[bot]
b7cb3462d4 build(deps): bump actions/setup-python from 4.7.0 to 4.7.1 (#40287)
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4.7.0 to 4.7.1.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](61a6322f88...65d7f2d534)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-03 12:28:02 +02:00
dependabot[bot]
f2230100ac build(deps): bump urllib3 from 2.0.5 to 2.0.6 in /lib/spack/docs (#40286)
Bumps [urllib3](https://github.com/urllib3/urllib3) from 2.0.5 to 2.0.6.
- [Release notes](https://github.com/urllib3/urllib3/releases)
- [Changelog](https://github.com/urllib3/urllib3/blob/main/CHANGES.rst)
- [Commits](https://github.com/urllib3/urllib3/compare/v2.0.5...2.0.6)

---
updated-dependencies:
- dependency-name: urllib3
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-10-03 12:27:36 +02:00
Massimiliano Culpo
4b06862a7f Deactivate Cray sles, due to unavailable runner (#40291)
This reverts commit 0274091204.
2023-10-03 11:06:36 +02:00
Harmen Stoppels
06057d6dba Buildcache tarballs with rootfs structure (#39341)
Two changes in this PR:

1. Register absolute paths in tarballs, which makes it easier
   to use them as container image layers, or rootfs in general, outside
   of Spack. Spack supports this already on develop.
2. Assemble the tarfile entries "by hand", which has a few advantages:
   1. Avoid reading `/etc/passwd`, `/etc/groups`, `/etc/nsswitch.conf`
      which `tar.add(dir)` does _for each file it adds_
   2. Reduce the number of stat calls per file added by a factor two,
      compared to `tar.add`, which should help with slow, shared filesystems
      where these calls are expensive
   4. Create normalized `TarInfo` entries from the start, instead of letting
      Python create them and patching them after the fact
   5. Don't recurse into subdirs before processing files, to avoid
      keeping nested directories opened. (this changes the tar entry
      order slightly, it's like sorting by `(not is_dir, name)`.
2023-10-03 09:56:18 +02:00
Sam Reeve
bb03a1768b Add AdditiveFOAM package (#39295)
* Add AdditiveFOAM package
* Add AdditiveFOAM build and install

Co-authored-by: kjrstory <kjrstory@gmail.com>
Co-authored-by: Knapp, Gerry <knappgl@ornl.gov>

---------

Co-authored-by: kjrstory <kjrstory@gmail.com>
Co-authored-by: Knapp, Gerry <knappgl@ornl.gov>
2023-10-02 16:27:13 -07:00
Adam J. Stewart
75ed26258c py-torchgeo: add v0.5.0 (#40267)
* py-torchgeo: add v0.5.0

* Better documentation of dependency quirks
2023-10-02 15:23:49 -05:00
eugeneswalker
1da8477a3c vtk-m@2.0: depend on kokkos@3.7:3.9 per issue #40268 (#40281) 2023-10-02 12:26:55 -07:00
Christoph Weber
4c111554ae Add ipm package (#40069) 2023-10-02 11:46:17 -07:00
renjithravindrankannath
615312fcee Rocm 5.6.0 & 5.6.1 release updates (#39673)
* 5.6.0 updates
* Rocm 5.6.0 updates
* Style and audit corrections for 5.6
* Patching smi path for tests.
* Style correction
* 5.6.1 updates
* Updated hip tests for ci build  failure
   Updated hiprand with the release tag
   Taken care the review comment rocsolver
* Adding rocm-smi path for 5.6
* Adding the patch file
* Setting library directory uniform
* gl depends on mesa but it should not be llvm variant
* Fix for the issue 39520 by setting CMAKE_INSTALL_LIBDIR=lib
* i1 muls can sometimes happen after SCEV. They resulted in
   ISel failures because we were missing the patterns for them.
* 5.6.0 & 5.6.1 updates for migraphx, miopen-hip, mivisionx
* Revert "5.6.0 & 5.6.1 updates for migraphx, miopen-hip, mivisionx"
   This reverts commit f54c9c6c67.
* Revert operator mixup fix
* Splitting compiler-rt-linkage-for-host and operator mixup patch
* Adding missing patch for reverting operator mixup
* 5.6 update for composable-kernel,migraphx,miopen-hip and mivisionx
* Updating rvs, rcd and rccl for 5.6.1. adding comment for llvm patch
2023-10-02 11:36:51 -07:00
Joseph Wang
453625014d fix lhapdf package (#37384)
* fix lhapdf package
* [@spackbot] updating style on behalf of joequant

---------

Co-authored-by: joequant <joequant@users.noreply.github.com>
2023-10-02 11:33:54 -07:00
G-Ragghianti
1b75651af6 Implemented +sycl for slate (#39927)
* Implemented +sycl for slate

* style

* style

* add slate +sycl to ci

* slate +sycl: explicitly specify +mpi

* comment out slate+sycl+mpi in e4s oneapi stack

* removing requirement of intel-oneapi-mpi

* Added slate+sycl to e4s oneapi stack

* Removing obsolete comment

---------

Co-authored-by: eugeneswalker <eugenesunsetwalker@gmail.com>
2023-10-02 07:35:00 -07:00
Thomas Madlener
b3e3604f46 libtirpc: Add latest version and allow for builds on macOS (#40189) 2023-10-02 15:02:33 +02:00
Harmen Stoppels
6c4ce379ca buildcache: ignore errors of newer buildcache version (#40279)
Currently buildcaches are forward incompatible in an annoying way: spack
errors out when trying to use them.

With this change, you just get a warning.
2023-10-02 14:51:48 +02:00
Harmen Stoppels
a9dcba76ce py-importlib-metadata: add patch releases (#40249)
importlib_metadata 4.11.4 fixes some nasty issues with
`metadata.entry_points(...)`, so ensure we have those bugfixes.
2023-10-02 10:09:36 +02:00
Harmen Stoppels
32f21f2a01 Spack python 3.12: PEP 695 unparse support (#40155) 2023-10-02 00:25:52 -07:00
Greg Sjaardema
e60bbd1bfc Cgns fix no fortran config (#40241)
* SEACAS: Update package.py to handle new SEACAS project name

The base project name for the SEACAS project has changed from
"SEACASProj" to "SEACAS" as of @2022-10-14, so the package
needed to be updated to use the new project name when needed.

The refactor also changes several:
    "-DSome_CMAKE_Option:BOOL=ON"
to
   define("Some_CMAKE_Option", True)

* CGNS: If fortran not enabled, do not specify parallel fortran compiler

* Update package formatting as suggested by black

* Accept suggested change
2023-10-02 16:03:47 +09:00
Freifrau von Bleifrei
71c5b948d0 discotec package: add selalib variant (#40222) 2023-10-02 07:14:50 +02:00
Tom Payerle
726d6b9881 zoltan: Fixes for #40198 (#40199)
Fix issue in configure_args which resulted in duplicate "--with-ldflags" arguments (with different values) being passed to configure.  And extended the fix to similar arguments.

Also, repeated some flags to "--with-libs" to "--with-ldflags" as when the flags were only in "--with-libs", they did not seem to be picked up everywhere.  I suspect this is a bug in the configure script, but adding to both locations seems to solve it and should not have any adverse effects.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-10-02 07:11:36 +02:00
Sinan
aff64c02e8 xv: new package (#40032)
Co-authored-by: Sinan81 <Sinan@world>
2023-10-02 07:06:00 +02:00
Matthew Archer
31ae5cba91 add maintainers to py-nanobind (#40235) 2023-10-02 07:03:49 +02:00
Sam Reeve
0a91d2411a cabana: add v0.6 (#40168) 2023-10-02 06:57:55 +02:00
snehring
5f3af3d5e4 perl-dbd-mysql update to 4.050 (#40245)
* perl-devel-checklib: adding new package perl-devel-checklib

* perl-dbd-mysql: adding new version 4.050 and a new build dep
2023-10-02 06:45:11 +02:00
Satish Balay
37158cb913 petsc,py-petsc4py,slepc,py-slepc4py: add version 3.20.0 (#40260) 2023-10-02 06:28:37 +02:00
Wouter Deconinck
a596e16a37 libxkbcommon: new versions 1.4.1, 1.5.0 (#40273) 2023-10-02 05:54:55 +02:00
Weiqun Zhang
4e69f5121f amrex: add v23.10 (#40270) 2023-10-02 05:53:16 +02:00
Wouter Deconinck
2a0f4393c3 assimp: new version 5.3.1 (#40271) 2023-10-02 05:52:30 +02:00
Wouter Deconinck
c9e1e7d90c acts: impose cxxstd variant on geant4 dependency (#39767) 2023-10-02 05:49:51 +02:00
Juan Miguel Carceller
7170f2252c rivet: remove deprecated versions and clean up recipe (#39861)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2023-10-02 05:48:35 +02:00
eugeneswalker
b09073e01e py-pandas@0.24.2 %oneapi: add cflag=-Wno-error=implicit-function-declaration (#39470) 2023-10-01 14:42:56 -06:00
eugeneswalker
2d509dc3eb py-scipy: -fvisibility issue is resolved in 2023.1.0: (#39464)
* py-scipy: -fvisibility issue is resolved in 2023.1.0:

* e4s oneapi ci: add py-scipy
2023-10-01 17:29:21 +00:00
Martin Aumüller
8a9d45cc29 embree: fix linux build on aarch64 for 3.13.5 (#39749)
- upstream patch does not apply cleanly to older versions, not required
  for newer ones
- also add conflict for older versions, except for 3.13.3 which works by
  chance
2023-10-01 09:04:37 -07:00
Wouter Deconinck
b25f8643ff geant4, vecgeom: support variant cxxstd=20 (#39785) 2023-10-01 21:33:37 +09:00
Juan Miguel Carceller
9120b6644d qt: change version for opengl dependencies (#39718) 2023-10-01 21:31:11 +09:00
eugeneswalker
68dbd25f5f e4s cray sles ci: expand spec list (#40162)
* e4s cray sles stack: expand spec list

* remove unnecessary packages:trilinos:one_of
2023-09-30 21:32:33 -07:00
Todd Gamblin
9e54134daf docs: Replace package list with packages.spack.io (#40251)
For a long time, the docs have generated a huge, static HTML package list. It has some
disadvantages:

* It's slow to load
* It's slow to build
* It's hard to search

We now have a nice website that can tell us about Spack packages, and it's searchable so
users can easily find the one or two packages out of 7400 that they're looking for. We
should link to this instead of including a static package list page in the docs.

- [x] Replace package list link with link to packages.spack.io
- [x] Remove `package_list.html` generation from `conf.py`.
- [x] Add a new section for "Links" to the docs.
- [x] Remove docstring notes from contribution guide (we haven't generated RST
      for package docstrings for a while)
- [x] Remove referencese to `package-list` from docs.
2023-10-01 05:36:22 +02:00
eugeneswalker
08a9345fcc e4s ci: add packages: drishti, dxt-explorer (#39597)
* e4s ci: add packages: drishti, dxt-explorer

* e4s oneapi ci: comment out dxt-explorer until r%oneapi issue #40257 is resolved
2023-09-30 06:15:58 +09:00
Richarda Butler
9db3d9dd6a Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-29 13:35:38 -07:00
John W. Parent
7d072cc16f Windows: detect all available SDK versions (#39823)
Currently, Windows SDK detection will only pick up SDK versions
related to the current version of Windows Spack is running on.
However, in some circumstances, we want to detect other version
of the SDK, for example, for compiling on Windows 11 for Windows
10 to ensure an API is compatible with Win10.
2023-09-29 20:17:10 +00:00
snehring
d81f457e7a modeltest-ng: adding new version, swapping maintainer (#40217)
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2023-09-29 20:19:29 +02:00
Peter Scheibel
3969653f1b Cray manifest: compiler handling fixes (#40061)
* Make use of `prefix` in the Cray manifest schema (prepend it to
  the relative CC etc.) - this was a Spack error.
* Warn people when wrong-looking compilers are found in the manifest
  (i.e. non-existent CC path).
* Bypass compilers that we fail to add (don't allow a single bad
  compiler to terminate the entire read-cray-manifest action).
* Refactor Cray manifest tests: module-level variables have been
  replaced with fixtures, specifically using the `test_platform`
  fixture, which allows the unit tests to run with the new
  concretizer.
* Add unit test to check case where adding a compiler raises an
  exception (check that this doesn't prevent processing the
  rest of the manifest).
2023-09-29 09:47:30 -07:00
Jordan Galby
db37672abf Print error when missing git (#40254)
Like a missing curl.
2023-09-29 15:14:39 +00:00
eugeneswalker
1f75ca96df kokkos-nvcc-wrapper: add v4.1.00 (#40240) 2023-09-29 17:08:42 +02:00
Harmen Stoppels
605835fe42 Don't drop build deps on overwrite install (#40252)
If you `spack install x ^y` where `y` is a pure build dep of `x`, and
then uninstall `y`, and then `spack install --overwrite x ^y`, the build
fails because `y` is not re-installed.

Same can happen when you install a develop spec, run `spack gc`,
modify sources, and install again; develop specs rely on overwrite
install to work correctly.
2023-09-29 16:40:21 +02:00
Abhishek Yenpure
6c2748c37d Adding Catalyst 2.0 smoke test (#40112)
--  Performaing formatting changes
  --  Formatting file to conform with spack style
  --  Adding updates from review
  --  Removing old release candidates from the specification
  --  Adding external conduit support for Catalyst
  --  Adding Catalyst to `CMAKE_PREFIX_PATH` for the test to find
2023-09-29 16:36:24 +02:00
Massimiliano Culpo
210d221357 Test package detection in a systematic way (#18175)
This PR adds a new audit sub-command to check that detection of relevant packages
is performed correctly in a few scenarios mocking real use-cases. The data for each 
package being tested is in a YAML file called detection_test.yaml alongside the 
corresponding package.py file.

This is to allow encoding detection tests for compilers and other widely used tools, 
in preparation for compilers as dependencies.
2023-09-29 10:24:42 +02:00
Mark W. Krentel
c9ef5c8152 hpctoolkit: add version 2023.08.1 (#40248)
Add versions 2020.08.1 and branch 2023.08.stable.  Note: the version
numbers are a little different.  Here, 2023.08.1 means release no. 1
from the release/2023.08 branch.
2023-09-29 00:48:05 -06:00
eugeneswalker
0274091204 Revert "e4s cray sles: suspend ci until machine issues resolved (#40219)" (#40238)
This reverts commit 5165524ca6.
2023-09-29 07:25:50 +02:00
John W. Parent
3f2f0cc146 openblas package: fix lib suffix construction in libs (#40242) 2023-09-28 22:02:37 -06:00
Richarda Butler
69bbccef6e Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-28 14:38:54 -07:00
Massimiliano Culpo
a236fce31f Partial removal of circular dependencies between spack and llnl (#40090)
Modifications:
- [x] Move `spack.util.string` to `llnl.string`
- [x] Remove dependency of `llnl` on `spack.error`
- [x] Move path of `spack.util.path` to `llnl.path`
- [x] Move `spack.util.environment.get_host_*` to `spack.spec`
2023-09-28 16:21:52 +00:00
snehring
f77a38a96b mash: fix compilation for aarch64 (#40218) 2023-09-28 10:16:11 -06:00
Harmen Stoppels
6d55066b94 Use st_nlink in hardlink tracking (#39328)
Only add potential hardlinks to a set/dict, instead of each file. This
should be much cheaper, since hardlinks are very rare.
2023-09-28 13:24:56 +00:00
Harmen Stoppels
78132f2d6b glibc: dont link libgcc_eh.a pre 2.17, and backport at_random auxval patch (#40013)
This resolves an interesting circular dependency between gcc and glibc:

1. glibc < 2.17 depends on libgcc.a and libgcc_eh.a
2. libgcc_eh.a is only built when gcc is configured with
   --enable-shared
3. but building shared libraries requires crt*.o and libc.so

Backport AT_RANDOM auxval changes to avoid dealing with wrong inline 
assembly (fallback code fails on ubuntu 23.04)
2023-09-28 13:30:43 +02:00
Brian Vanderwende
fba47e87d7 Support optional vars script arguments (#40064) 2023-09-28 06:52:22 -04:00
Massimiliano Culpo
bf8e8d9f5f cmake: add v3.27.6 (#40037)
Co-authored-by: Harmen Stoppels <me@harmenstoppels.nl>
2023-09-28 11:06:28 +02:00
Sam Gillingham
ebc0e9be19 kealib: add 1.5.1 and 1.5.2 versions (#40202)
* add recent kealib versions
* udpdate depends_on so hl not required for latest version
2023-09-27 19:08:28 -06:00
Vicente Bolea
b6f08f1d4e vtk-m: add VTK-m 2.1.0-rc1 (#39581) 2023-09-27 10:13:18 -06:00
Jared Popelar
d9724597ed Trilinos package: build on Windows (#34622)
Update Trilinos and dependencies to build a limited version of Trilinos
on Windows.

* Support trilinos~mpi~shared on Windows
* superlu: force CMake build on Windows
* boost: update to build on Windows (proper option formatting and
  build tool names)
* pcre, openblas: add CMake-based build (keep prior build system
  as default on platforms other than Windows)
* openblas: add patch when using Intel Fortran compiler (currently
  this is included as part of the hybrid %msvc compiler in Spack)

Co-authored-by: John Parent <john.parent@kitware.com>
2023-09-27 09:58:12 -06:00
kwryankrattiger
c90c946d52 ParaView: Add versio 5.11.2 (#40213) 2023-09-27 10:20:13 -05:00
Martin Aumüller
bb66d15d08 ffmpeg: fix build with XCode 15 (#40187)
As reported in #40159, a shared library build of ffmpeg 6.0 fails with the linker that was added with XCode 15:
ld: building exports trie: duplicate symbol '_av_ac3_parse_header'
clang: error: linker command failed with exit code 1 (use -v to see invocation)

Forcing the old linker with -Wl,-ld_classic works around this.
2023-09-27 16:41:32 +02:00
snehring
1cd2d07f0b last: add new version, fix build on aarch64 (#40216)
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2023-09-27 16:32:18 +02:00
Garth N. Wells
43cb49d87a py-nanonbind: add new versions (#40161) 2023-09-27 16:28:26 +02:00
eugeneswalker
5165524ca6 e4s cray sles: suspend ci until machine issues resolved (#40219) 2023-09-27 04:51:34 +02:00
Martin Aumüller
38dc3a6896 vtk: @9.2 need seacas@2022-10-14, fix macos (#39896)
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2023-09-26 13:48:44 -06:00
John W. Parent
115e448bd3 Paraview package: update freetype find patch for shared libs (#40085)
VTK's (and therefore Paraview's) FindFreetype module required patching to
handle static import libraries from Freetype. However it did not cover
shared libraries. This adds support for importing shared freetype into the VTK build
2023-09-26 10:41:24 -07:00
Harmen Stoppels
5c25437c9f spack --profile: dump to stderr (#40209) 2023-09-26 16:18:47 +02:00
Christoph Weber
0e72ff4a0d ploticus: new package (#39881)
Co-authored-by: Bernhard Kaindl <contact@bernhard.kaindl.dev>
2023-09-26 08:15:12 -05:00
Matt Fraser
90edd18d1f Add NCCL v2.18.5-1 release to recipe (#40201) 2023-09-26 08:05:23 -05:00
Massimiliano Culpo
40dbadb868 crosstool-ng: add v1.26.0 (#40204) 2023-09-26 11:17:39 +02:00
Martin Aumüller
c16546bd4c libressl: fix package & new versions (#39741) 2023-09-26 10:39:29 +02:00
Dom Heinzeller
143e6a4fbb Always apply Python unixcompilers.py rpath fix, not just on cray (#39929)
* Rename var/spack/repos/builtin/packages/python/cray-rpath-3.1.patch as var/spack/repos/builtin/packages/python/rpath-non-gcc.patch and apply unconditionally

* Update var/spack/repos/builtin/packages/python/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-09-26 02:38:20 -06:00
Martin Aumüller
13816f19fd opencv: add 4.7.0 and 4.8.0 and fix ffmpeg dependency (#39013) 2023-09-26 10:28:29 +02:00
Martin Aumüller
34ff3b408b seacas: correctly limit fmt dependency (#39756)
versions older than 2022-10-14 do not build with fmt@10, either:
fmt/core.h:1579:3: error: static_assert failed due to requirement 'formattable'
2023-09-26 06:35:38 +02:00
Victor A. P. Magri
aec88ef3e6 hypre: add support for magma (#40121) 2023-09-26 06:27:14 +02:00
snehring
9fda22d942 bcl2fastq2: patch for compiling on aarch64 (#40195) 2023-09-26 06:26:19 +02:00
snehring
550613ee3a gmap-gsnap: add v2023-07-20 and aarch64 support (#40200) 2023-09-26 05:59:31 +02:00
Ethan Williams
5341834ebe Elbencho: add elbencho package (#40193)
* add elbencho package
* pep8 compliant
* add description
* depends on boost
* boost options
* dependencies
* fix ncurses not linking properly missing tinfo
* pep8 fix
* fix style of boost variants
* final style fix - spack style is happy
* correct cufile env variable name

---------

Co-authored-by: Ethan W <mail@ethanwilliams.xyz>
2023-09-25 18:53:28 -06:00
Alberto Invernizzi
fc027e34d1 apex: add new version 2.6.3 + deal with ompt build problem (#40073)
* add new version 2.6.3
* add conflict for openmp when using gcc
2023-09-25 16:00:58 -07:00
Harmen Stoppels
aef58776b4 openssl: new versions (#40194)
apparently there was still a 1.1.1 release
2023-09-25 21:54:05 +02:00
Cameron Smith
4e17a40d09 omegah: new version (#40192) 2023-09-25 13:53:36 -06:00
Matthieu Dorier
d97251a4c6 spdlog: add version 1.12.0 (#40186) 2023-09-25 12:23:02 -07:00
snehring
2a66a67132 subread: removing mtune arg to compiler (#40197) 2023-09-25 12:19:25 -07:00
eugeneswalker
10fd69ec74 new package: gsibec (#40137) 2023-09-25 11:28:04 -06:00
Richarda Butler
4bf6325930 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-25 08:37:41 -07:00
Harmen Stoppels
9889a0cac6 py-numcodecs: drop upperbound, add new version, avoid native compilation (#40183)
* py-numcodecs: drop upperbound, add new version, avoid native compilation

* py-numcodecs: add entrypoints

* Remove another upperbound on python

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-09-25 07:28:32 -06:00
Harmen Stoppels
65ffd0dd63 jsoncpp: add meson build system, update package, update cmake ~ownlibs (#39639) 2023-09-25 10:13:30 +02:00
Bernhard Kaindl
3d2c779b87 openssh: add version 9.4p1 and fix compile issue with new zlib-1.3 (#40174)
The fix for the compile issue was improved by Bernhard Kaindl.
He also added to fix two classes of other build fails:
- add missing openssl dependency version limit to older openssh versions
- add missing -fcommon for new compilers building old openssh versions

Co-authored-by: snehring <snehring@iastate.edu>
2023-09-25 08:30:10 +02:00
Harmen Stoppels
b57c2a10d4 phist: remove python 3.10 upperbound (#40175) 2023-09-25 08:28:13 +02:00
Diego Alvarez S
849a0a5eeb Add opendjk 11.0.20.1+1, 17.0.8.1+1 (#40035) 2023-09-25 05:09:30 +02:00
Rocco Meli
7e4a6160b9 namd: Add NAMD 3.0b3 and ARM support (#40134) 2023-09-25 05:04:17 +02:00
dependabot[bot]
646e7b4b00 build(deps): bump black in /.github/workflows/style (#40165)
Bumps [black](https://github.com/psf/black) from 23.1.0 to 23.9.1.
- [Release notes](https://github.com/psf/black/releases)
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md)
- [Commits](https://github.com/psf/black/compare/23.1.0...23.9.1)

---
updated-dependencies:
- dependency-name: black
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-09-24 17:48:02 +00:00
eugeneswalker
eea86c3981 new package: ecmwf-atlas (#40136) 2023-09-24 10:43:09 -06:00
dependabot[bot]
37c48fc82c build(deps): bump urllib3 from 2.0.4 to 2.0.5 in /lib/spack/docs (#40119)
Bumps [urllib3](https://github.com/urllib3/urllib3) from 2.0.4 to 2.0.5.
- [Release notes](https://github.com/urllib3/urllib3/releases)
- [Changelog](https://github.com/urllib3/urllib3/blob/main/CHANGES.rst)
- [Commits](https://github.com/urllib3/urllib3/compare/2.0.4...v2.0.5)

---
updated-dependencies:
- dependency-name: urllib3
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-09-24 17:35:48 +02:00
George Young
47daba3dc1 blast-plus: add 2.14.1 (#40179)
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-09-24 09:33:38 -06:00
Brian Vanderwende
46062d98fd visit: Add NetCDF format support (#40065) 2023-09-24 17:26:34 +02:00
François Trahay
4e37084ed4 EZTrace: add v2.1 (#39748) 2023-09-24 17:12:32 +02:00
Thomas Madlener
e7c229393d garfieldpp: Fix the signature of setup_dependent_build_environment (#40133) 2023-09-24 17:04:41 +02:00
Houjun Tang
87fd9c3e93 sw4: add v3.0 (#40146) 2023-09-24 16:54:32 +02:00
snehring
676f2a3175 hmmer: adding new version 3.4 (#40148) 2023-09-24 16:53:18 +02:00
Adam J. Stewart
5fe7f5329b py-torchvision: minimize dependencies (#40163) 2023-09-24 16:27:09 +02:00
Adam J. Stewart
c6a3dd03ab py-torchmetrics: add v1.2.0 (#40164) 2023-09-24 16:25:34 +02:00
Hartmut Kaiser
ebdd5e28f2 flecsi: bumping HPX requirement to V1.9.1 (#32355) 2023-09-24 16:24:33 +02:00
dependabot[bot]
068abdd105 build(deps): bump mypy from 1.5.0 to 1.5.1 in /.github/workflows/style (#40166)
Bumps [mypy](https://github.com/python/mypy) from 1.5.0 to 1.5.1.
- [Commits](https://github.com/python/mypy/compare/v1.5.0...v1.5.1)

---
updated-dependencies:
- dependency-name: mypy
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-09-24 16:21:41 +02:00
dependabot[bot]
9ec372a86c build(deps): bump actions/checkout from 4.0.0 to 4.1.0 (#40172)
Bumps [actions/checkout](https://github.com/actions/checkout) from 4.0.0 to 4.1.0.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](3df4ab11eb...8ade135a41)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2023-09-24 16:08:15 +02:00
Alec Scott
5e05f6b7c6 bfs: add v3.0.2 (#40176) 2023-09-24 15:53:15 +02:00
Alec Scott
7988d8c67d glab: add v1.33.0 (#40177) 2023-09-24 15:53:01 +02:00
Alec Scott
658a3f2fdb hugo: add v0.118.2 (#40178) 2023-09-24 15:52:42 +02:00
Rocco Meli
582f0289af Add mda-xdrlib and update pyedr and panedr (#39912)
* ensure umpire~cuda~rocm when ~cuda~rocm

* Add mda-xdrlib and update pyedr and panedr

* Update var/spack/repos/builtin/packages/py-mda-xdrlib/package.py

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>

* code review

* fix python pin, conflated with py-tomli

---------

Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
2023-09-24 02:07:59 -06:00
eugeneswalker
95b737d923 trilinos +shylu: patch to resolve trilinos issue #12048 (#40169)
* trilinos +shylu: patch to resolve trilinos issue #12048

* e4s ci: build xyce ^trilinos+shylu

---------

Co-authored-by: Seth R. Johnson <johnsonsr@ornl.gov>
2023-09-24 16:28:03 +09:00
Richarda Butler
8a56c096d3 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-11 13:27:25 -07:00
Richarda Butler
8760d3885a Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-07 13:52:08 -07:00
Richarda Butler
1740c575a2 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-06 11:05:17 -07:00
Richarda Butler
d882116f75 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-09-05 09:20:32 -07:00
Richarda Butler
90393b77d9 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-08-31 09:20:48 -07:00
Richarda Butler
2096f35f76 Merge branch 'develop' into bugfix/compiler-flag-propagation 2023-08-30 14:27:36 -07:00
Kayla Butler
8897e1e11f Only specified compiler flag propagates 2023-08-29 13:18:12 -07:00
Kayla Butler
f0df745f54 Make sure literals have the right node id when propagating 2023-08-28 15:07:16 -07:00
RikkiButler20
06c516c580 [@spackbot] updating style on behalf of RikkiButler20 2023-08-24 15:24:06 -07:00
Kayla Butler
0d9b416bc5 Check that compiler flags can propagate 2023-08-24 15:22:50 -07:00
Kayla Butler
a9be08f560 Make sure to get the value from source package 2023-08-24 15:16:04 -07:00
Kayla Butler
eb62129654 Fix error in concretizer 2023-08-24 15:16:03 -07:00
Kayla Butler
92ff8cfd45 Simplify node_flag_propagate and propagate past 1st level dependencies 2023-08-24 15:14:53 -07:00
Kayla Butler
b0d13f8fcc Making compiler flag propagation test uniform 2023-08-24 14:49:57 -07:00
Kayla Butler
e101c77768 Change test for not passing compiler flag 2023-08-24 14:49:56 -07:00
Kayla Butler
fe5ea193fc Updating test and put in a fix 2023-08-24 14:42:57 -07:00
954 changed files with 33047 additions and 8410 deletions

View File

@@ -22,8 +22,8 @@ jobs:
matrix:
operating_system: ["ubuntu-latest", "macos-latest"]
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1 # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: ${{inputs.python_version}}
- name: Install Python packages
@@ -34,6 +34,7 @@ jobs:
run: |
. share/spack/setup-env.sh
coverage run $(which spack) audit packages
coverage run $(which spack) audit externals
coverage combine
coverage xml
- name: Package audits (without coverage)
@@ -41,6 +42,7 @@ jobs:
run: |
. share/spack/setup-env.sh
$(which spack) audit packages
$(which spack) audit externals
- uses: codecov/codecov-action@eaaf4bedf32dbdc6b720b63067d99c4d77d6047d # @v2.1.0
if: ${{ inputs.with_coverage == 'true' }}
with:

View File

@@ -24,7 +24,7 @@ jobs:
make patch unzip which xz python3 python3-devel tree \
cmake bison bison-devel libstdc++-static
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup non-root user
@@ -42,8 +42,8 @@ jobs:
shell: runuser -u spack-test -- bash {0}
run: |
source share/spack/setup-env.sh
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack external find cmake bison
spack -d solve zlib
tree ~/.spack/bootstrap/store/
@@ -62,7 +62,7 @@ jobs:
make patch unzip xz-utils python3 python3-dev tree \
cmake bison
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup non-root user
@@ -80,8 +80,8 @@ jobs:
shell: runuser -u spack-test -- bash {0}
run: |
source share/spack/setup-env.sh
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack external find cmake bison
spack -d solve zlib
tree ~/.spack/bootstrap/store/
@@ -99,7 +99,7 @@ jobs:
bzip2 curl file g++ gcc gfortran git gnupg2 gzip \
make patch unzip xz-utils python3 python3-dev tree
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup non-root user
@@ -133,7 +133,7 @@ jobs:
make patch unzip which xz python3 python3-devel tree \
cmake bison
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup repo
@@ -145,8 +145,8 @@ jobs:
- name: Bootstrap clingo
run: |
source share/spack/setup-env.sh
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack external find cmake bison
spack -d solve zlib
tree ~/.spack/bootstrap/store/
@@ -158,13 +158,16 @@ jobs:
run: |
brew install cmake bison@2.7 tree
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: "3.12"
- name: Bootstrap clingo
run: |
source share/spack/setup-env.sh
export PATH=/usr/local/opt/bison@2.7/bin:$PATH
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack external find --not-buildable cmake bison
spack -d solve zlib
tree ~/.spack/bootstrap/store/
@@ -179,7 +182,7 @@ jobs:
run: |
brew install tree
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
- name: Bootstrap clingo
run: |
set -ex
@@ -204,7 +207,7 @@ jobs:
runs-on: ubuntu-20.04
steps:
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup repo
@@ -247,7 +250,7 @@ jobs:
bzip2 curl file g++ gcc patchelf gfortran git gzip \
make patch unzip xz-utils python3 python3-dev tree
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup non-root user
@@ -265,6 +268,7 @@ jobs:
shell: runuser -u spack-test -- bash {0}
run: |
source share/spack/setup-env.sh
spack bootstrap disable github-actions-v0.4
spack bootstrap disable spack-install
spack -d gpg list
tree ~/.spack/bootstrap/store/
@@ -283,7 +287,7 @@ jobs:
make patch unzip xz-utils python3 python3-dev tree \
gawk
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- name: Setup non-root user
@@ -302,8 +306,8 @@ jobs:
run: |
source share/spack/setup-env.sh
spack solve zlib
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack -d gpg list
tree ~/.spack/bootstrap/store/
@@ -316,10 +320,11 @@ jobs:
# Remove GnuPG since we want to bootstrap it
sudo rm -rf /usr/local/bin/gpg
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
- name: Bootstrap GnuPG
run: |
source share/spack/setup-env.sh
spack bootstrap disable github-actions-v0.4
spack bootstrap disable spack-install
spack -d gpg list
tree ~/.spack/bootstrap/store/
@@ -333,13 +338,13 @@ jobs:
# Remove GnuPG since we want to bootstrap it
sudo rm -rf /usr/local/bin/gpg
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
- name: Bootstrap GnuPG
run: |
source share/spack/setup-env.sh
spack solve zlib
spack bootstrap disable github-actions-v0.5
spack bootstrap disable github-actions-v0.4
spack bootstrap disable github-actions-v0.3
spack -d gpg list
tree ~/.spack/bootstrap/store/

View File

@@ -38,12 +38,11 @@ jobs:
# Meaning of the various items in the matrix list
# 0: Container name (e.g. ubuntu-bionic)
# 1: Platforms to build for
# 2: Base image (e.g. ubuntu:18.04)
# 2: Base image (e.g. ubuntu:22.04)
dockerfile: [[amazon-linux, 'linux/amd64,linux/arm64', 'amazonlinux:2'],
[centos7, 'linux/amd64,linux/arm64,linux/ppc64le', 'centos:7'],
[centos-stream, 'linux/amd64,linux/arm64,linux/ppc64le', 'centos:stream'],
[leap15, 'linux/amd64,linux/arm64,linux/ppc64le', 'opensuse/leap:15'],
[ubuntu-bionic, 'linux/amd64,linux/arm64,linux/ppc64le', 'ubuntu:18.04'],
[ubuntu-focal, 'linux/amd64,linux/arm64,linux/ppc64le', 'ubuntu:20.04'],
[ubuntu-jammy, 'linux/amd64,linux/arm64,linux/ppc64le', 'ubuntu:22.04'],
[almalinux8, 'linux/amd64,linux/arm64,linux/ppc64le', 'almalinux:8'],
@@ -56,20 +55,22 @@ jobs:
if: github.repository == 'spack/spack'
steps:
- name: Checkout
uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
- name: Set Container Tag Normal (Nightly)
run: |
container="${{ matrix.dockerfile[0] }}:latest"
echo "container=${container}" >> $GITHUB_ENV
echo "versioned=${container}" >> $GITHUB_ENV
# On a new release create a container with the same tag as the release.
- name: Set Container Tag on Release
if: github.event_name == 'release'
run: |
versioned="${{matrix.dockerfile[0]}}:${GITHUB_REF##*/}"
echo "versioned=${versioned}" >> $GITHUB_ENV
- uses: docker/metadata-action@96383f45573cb7f253c731d3b3ab81c87ef81934
id: docker_meta
with:
images: |
ghcr.io/${{ github.repository_owner }}/${{ matrix.dockerfile[0] }}
${{ github.repository_owner }}/${{ matrix.dockerfile[0] }}
tags: |
type=schedule,pattern=nightly
type=schedule,pattern=develop
type=semver,pattern={{version}}
type=semver,pattern={{major}}.{{minor}}
type=semver,pattern={{major}}
type=ref,event=branch
type=ref,event=pr
- name: Generate the Dockerfile
env:
@@ -92,13 +93,13 @@ jobs:
path: dockerfiles
- name: Set up QEMU
uses: docker/setup-qemu-action@68827325e0b33c7199eb31dd4e31fbe9023e06e3 # @v1
uses: docker/setup-qemu-action@68827325e0b33c7199eb31dd4e31fbe9023e06e3
- name: Set up Docker Buildx
uses: docker/setup-buildx-action@f95db51fddba0c2d1ec667646a06c2ce06100226 # @v1
uses: docker/setup-buildx-action@f95db51fddba0c2d1ec667646a06c2ce06100226
- name: Log in to GitHub Container Registry
uses: docker/login-action@343f7c4344506bcbf9b4de18042ae17996df046d # @v1
uses: docker/login-action@343f7c4344506bcbf9b4de18042ae17996df046d
with:
registry: ghcr.io
username: ${{ github.actor }}
@@ -106,21 +107,18 @@ jobs:
- name: Log in to DockerHub
if: github.event_name != 'pull_request'
uses: docker/login-action@343f7c4344506bcbf9b4de18042ae17996df046d # @v1
uses: docker/login-action@343f7c4344506bcbf9b4de18042ae17996df046d
with:
username: ${{ secrets.DOCKERHUB_USERNAME }}
password: ${{ secrets.DOCKERHUB_TOKEN }}
- name: Build & Deploy ${{ matrix.dockerfile[0] }}
uses: docker/build-push-action@0565240e2d4ab88bba5387d719585280857ece09 # @v2
uses: docker/build-push-action@0565240e2d4ab88bba5387d719585280857ece09
with:
context: dockerfiles/${{ matrix.dockerfile[0] }}
platforms: ${{ matrix.dockerfile[1] }}
push: ${{ github.event_name != 'pull_request' }}
cache-from: type=gha
cache-to: type=gha,mode=max
tags: |
spack/${{ env.container }}
spack/${{ env.versioned }}
ghcr.io/spack/${{ env.container }}
ghcr.io/spack/${{ env.versioned }}
tags: ${{ steps.docker_meta.outputs.tags }}
labels: ${{ steps.docker_meta.outputs.labels }}

View File

@@ -35,7 +35,7 @@ jobs:
core: ${{ steps.filter.outputs.core }}
packages: ${{ steps.filter.outputs.packages }}
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
if: ${{ github.event_name == 'push' }}
with:
fetch-depth: 0

View File

@@ -14,10 +14,10 @@ jobs:
build-paraview-deps:
runs-on: windows-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: 3.9
- name: Install Python packages

View File

@@ -1,7 +1,7 @@
black==23.1.0
black==23.10.1
clingo==5.6.2
flake8==6.1.0
isort==5.12.0
mypy==1.5.0
mypy==1.6.1
types-six==1.16.21.9
vermin==1.5.2

View File

@@ -15,7 +15,7 @@ jobs:
strategy:
matrix:
os: [ubuntu-latest]
python-version: ['3.7', '3.8', '3.9', '3.10', '3.11']
python-version: ['3.7', '3.8', '3.9', '3.10', '3.11', '3.12']
concretizer: ['clingo']
on_develop:
- ${{ github.ref == 'refs/heads/develop' }}
@@ -45,12 +45,16 @@ jobs:
os: ubuntu-latest
concretizer: 'clingo'
on_develop: false
- python-version: '3.11'
os: ubuntu-latest
concretizer: 'clingo'
on_develop: false
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1 # @v2
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: ${{ matrix.python-version }}
- name: Install System packages
@@ -94,10 +98,10 @@ jobs:
shell:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1 # @v2
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: '3.11'
- name: Install System packages
@@ -133,7 +137,7 @@ jobs:
dnf install -y \
bzip2 curl file gcc-c++ gcc gcc-gfortran git gnupg2 gzip \
make patch tcl unzip which xz
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
- name: Setup repo and non-root user
run: |
git --version
@@ -152,10 +156,10 @@ jobs:
clingo-cffi:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1 # @v2
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: '3.11'
- name: Install System packages
@@ -185,12 +189,12 @@ jobs:
runs-on: macos-latest
strategy:
matrix:
python-version: ["3.10"]
python-version: ["3.11"]
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1 # @v2
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236 # @v2
with:
python-version: ${{ matrix.python-version }}
- name: Install Python packages

View File

@@ -18,8 +18,8 @@ jobs:
validate:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: '3.11'
cache: 'pip'
@@ -35,10 +35,10 @@ jobs:
style:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: '3.11'
cache: 'pip'
@@ -69,7 +69,7 @@ jobs:
dnf install -y \
bzip2 curl file gcc-c++ gcc gcc-gfortran git gnupg2 gzip \
make patch tcl unzip which xz
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac # @v2
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # @v2
- name: Setup repo and non-root user
run: |
git --version

View File

@@ -15,10 +15,10 @@ jobs:
unit-tests:
runs-on: windows-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: 3.9
- name: Install Python packages
@@ -39,10 +39,10 @@ jobs:
unit-tests-cmd:
runs-on: windows-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: 3.9
- name: Install Python packages
@@ -63,10 +63,10 @@ jobs:
build-abseil:
runs-on: windows-latest
steps:
- uses: actions/checkout@3df4ab11eba7bda6032a0b82a6bb43b11571feac
- uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11
with:
fetch-depth: 0
- uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
- uses: actions/setup-python@65d7f2d534ac1bc67fcd62888c5f4f3d2cb2b236
with:
python-version: 3.9
- name: Install Python packages

View File

@@ -1,3 +1,33 @@
# v0.20.3 (2023-10-31)
## Bugfixes
- Fix a bug where `spack mirror set-url` would drop configured connection info (reverts #34210)
- Fix a minor issue with package hash computation for Python 3.12 (#40328)
# v0.20.2 (2023-10-03)
## Features in this release
Spack now supports Python 3.12 (#40155)
## Bugfixes
- Improve escaping in Tcl module files (#38375)
- Make repo cache work on repositories with zero mtime (#39214)
- Ignore errors for newer, incompatible buildcache version (#40279)
- Print an error when git is required, but missing (#40254)
- Ensure missing build dependencies get installed when using `spack install --overwrite` (#40252)
- Fix an issue where Spack freezes when the build process unexpectedly exits (#39015)
- Fix a bug where installation failures cause an unrelated `NameError` to be thrown (#39017)
- Fix an issue where Spack package versions would be incorrectly derived from git tags (#39414)
- Fix a bug triggered when file locking fails internally (#39188)
- Prevent "spack external find" to error out when a directory cannot be accessed (#38755)
- Fix multiple performance regressions in environments (#38771)
- Add more ignored modules to `pyproject.toml` for `mypy` (#38769)
# v0.20.1 (2023-07-10)
## Spack Bugfixes

View File

@@ -27,12 +27,53 @@
# And here's the CITATION.cff format:
#
cff-version: 1.2.0
type: software
message: "If you are referencing Spack in a publication, please cite the paper below."
title: "The Spack Package Manager: Bringing Order to HPC Software Chaos"
abstract: >-
Large HPC centers spend considerable time supporting software for thousands of users, but the complexity of HPC software is quickly outpacing the capabilities of existing software management tools.
Scientific applications require specific versions of compilers, MPI, and other dependency libraries, so using a single, standard software stack is infeasible.
However, managing many configurations is difficult because the configuration space is combinatorial in size.
We introduce Spack, a tool used at Lawrence Livermore National Laboratory to manage this complexity.
Spack provides a novel, re- cursive specification syntax to invoke parametric builds of packages and dependencies.
It allows any number of builds to coexist on the same system, and it ensures that installed packages can find their dependencies, regardless of the environment.
We show through real-world use cases that Spack supports diverse and demanding applications, bringing order to HPC software chaos.
preferred-citation:
title: "The Spack Package Manager: Bringing Order to HPC Software Chaos"
type: conference-paper
doi: "10.1145/2807591.2807623"
url: "https://github.com/spack/spack"
url: "https://tgamblin.github.io/pubs/spack-sc15.pdf"
authors:
- family-names: "Gamblin"
given-names: "Todd"
- family-names: "LeGendre"
given-names: "Matthew"
- family-names: "Collette"
given-names: "Michael R."
- family-names: "Lee"
given-names: "Gregory L."
- family-names: "Moody"
given-names: "Adam"
- family-names: "de Supinski"
given-names: "Bronis R."
- family-names: "Futral"
given-names: "Scott"
conference:
name: "Supercomputing 2015 (SC15)"
city: "Austin"
region: "Texas"
country: "US"
date-start: 2015-11-15
date-end: 2015-11-20
month: 11
year: 2015
identifiers:
- description: "The concept DOI of the work."
type: doi
value: 10.1145/2807591.2807623
- description: "The DOE Document Release Number of the work"
type: other
value: "LLNL-CONF-669890"
authors:
- family-names: "Gamblin"
given-names: "Todd"
- family-names: "LeGendre"
@@ -47,12 +88,3 @@ preferred-citation:
given-names: "Bronis R."
- family-names: "Futral"
given-names: "Scott"
title: "The Spack Package Manager: Bringing Order to HPC Software Chaos"
conference:
name: "Supercomputing 2015 (SC15)"
city: "Austin"
region: "Texas"
country: "USA"
month: November 15-20
year: 2015
notes: LLNL-CONF-669890

View File

@@ -7,6 +7,7 @@
[![Read the Docs](https://readthedocs.org/projects/spack/badge/?version=latest)](https://spack.readthedocs.io)
[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black)
[![Slack](https://slack.spack.io/badge.svg)](https://slack.spack.io)
[![Matrix](https://img.shields.io/matrix/spack-space%3Amatrix.org?label=Matrix)](https://matrix.to/#/#spack-space:matrix.org)
Spack is a multi-platform package manager that builds and installs
multiple versions and configurations of software. It works on Linux,
@@ -62,7 +63,10 @@ Resources:
* **Slack workspace**: [spackpm.slack.com](https://spackpm.slack.com).
To get an invitation, visit [slack.spack.io](https://slack.spack.io).
* [**Github Discussions**](https://github.com/spack/spack/discussions): not just for discussions, also Q&A.
* **Matrix space**: [#spack-space:matrix.org](https://matrix.to/#/#spack-space:matrix.org):
[bridged](https://github.com/matrix-org/matrix-appservice-slack#matrix-appservice-slack) to Slack.
* [**Github Discussions**](https://github.com/spack/spack/discussions):
not just for discussions, but also Q&A.
* **Mailing list**: [groups.google.com/d/forum/spack](https://groups.google.com/d/forum/spack)
* **Twitter**: [@spackpm](https://twitter.com/spackpm). Be sure to
`@mention` us!

View File

@@ -9,15 +9,15 @@ bootstrap:
# may not be able to bootstrap all the software that Spack needs,
# depending on its type.
sources:
- name: 'github-actions-v0.5'
metadata: $spack/share/spack/bootstrap/github-actions-v0.5
- name: 'github-actions-v0.4'
metadata: $spack/share/spack/bootstrap/github-actions-v0.4
- name: 'github-actions-v0.3'
metadata: $spack/share/spack/bootstrap/github-actions-v0.3
- name: 'spack-install'
metadata: $spack/share/spack/bootstrap/spack-install
trusted:
# By default we trust bootstrapping from sources and from binaries
# produced on Github via the workflow
github-actions-v0.5: true
github-actions-v0.4: true
github-actions-v0.3: true
spack-install: true

View File

@@ -41,4 +41,4 @@ concretizer:
# "none": allows a single node for any package in the DAG.
# "minimal": allows the duplication of 'build-tools' nodes only (e.g. py-setuptools, cmake etc.)
# "full" (experimental): allows separation of the entire build-tool stack (e.g. the entire "cmake" subDAG)
strategy: none
strategy: minimal

View File

@@ -229,3 +229,11 @@ config:
flags:
# Whether to keep -Werror flags active in package builds.
keep_werror: 'none'
# A mapping of aliases that can be used to define new commands. For instance,
# `sp: spec -I` will define a new command `sp` that will execute `spec` with
# the `-I` argument. Aliases cannot override existing commands.
aliases:
concretise: concretize
containerise: containerize
rm: remove

View File

@@ -46,10 +46,12 @@ modules:
tcl:
all:
autoload: direct
hide_implicits: true
# Default configurations if lmod is enabled
lmod:
all:
autoload: direct
hide_implicits: true
hierarchy:
- mpi

View File

@@ -1,4 +1,3 @@
package_list.html
command_index.rst
spack*.rst
llnl*.rst

View File

@@ -45,7 +45,8 @@ Listing available packages
To install software with Spack, you need to know what software is
available. You can see a list of available package names at the
:ref:`package-list` webpage, or using the ``spack list`` command.
`packages.spack.io <https://packages.spack.io>`_ website, or
using the ``spack list`` command.
.. _cmd-spack-list:
@@ -60,7 +61,7 @@ can install:
:ellipsis: 10
There are thousands of them, so we've truncated the output above, but you
can find a :ref:`full list here <package-list>`.
can find a `full list here <https://packages.spack.io>`_.
Packages are listed by name in alphabetical order.
A pattern to match with no wildcards, ``*`` or ``?``,
will be treated as though it started and ended with
@@ -1525,6 +1526,30 @@ any MPI implementation will do. If another package depends on
error. Likewise, if you try to plug in some package that doesn't
provide MPI, Spack will raise an error.
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Explicit binding of virtual dependencies
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
There are packages that provide more than just one virtual dependency. When interacting with them, users
might want to utilize just a subset of what they could provide, and use other providers for virtuals they
need.
It is possible to be more explicit and tell Spack which dependency should provide which virtual, using a
special syntax:
.. code-block:: console
$ spack spec strumpack ^[virtuals=mpi] intel-parallel-studio+mkl ^[virtuals=lapack] openblas
Concretizing the spec above produces the following DAG:
.. figure:: images/strumpack_virtuals.svg
:scale: 60 %
:align: center
where ``intel-parallel-studio`` *could* provide ``mpi``, ``lapack``, and ``blas`` but is used only for the former. The ``lapack``
and ``blas`` dependencies are satisfied by ``openblas``.
^^^^^^^^^^^^^^^^^^^^^^^^
Specifying Specs by Hash
^^^^^^^^^^^^^^^^^^^^^^^^

View File

@@ -155,16 +155,182 @@ List of popular build caches
* `Extreme-scale Scientific Software Stack (E4S) <https://e4s-project.github.io/>`_: `build cache <https://oaciss.uoregon.edu/e4s/inventory.html>`_
----------
Relocation
----------
Initial build and later installation do not necessarily happen at the same
location. Spack provides a relocation capability and corrects for RPATHs and
non-relocatable scripts. However, many packages compile paths into binary
artifacts directly. In such cases, the build instructions of this package would
need to be adjusted for better re-locatability.
When using buildcaches across different machines, it is likely that the install
root will be different from the one used to build the binaries.
To address this issue, Spack automatically relocates all paths encoded in binaries
and scripts to their new location upon install.
Note that there are some cases where this is not possible: if binaries are built in
a relatively short path, and then installed to a longer path, there may not be enough
space in the binary to encode the new path. In this case, Spack will fail to install
the package from the build cache, and a source build is required.
To reduce the likelihood of this happening, it is highly recommended to add padding to
the install root during the build, as specified in the :ref:`config <config-yaml>`
section of the configuration:
.. code-block:: yaml
config:
install_tree:
root: /opt/spack
padded_length: 128
-----------------------------------------
OCI / Docker V2 registries as build cache
-----------------------------------------
Spack can also use OCI or Docker V2 registries such as Dockerhub, Quay.io,
Github Packages, GitLab Container Registry, JFrog Artifactory, and others
as build caches. This is a convenient way to share binaries using public
infrastructure, or to cache Spack built binaries in Github Actions and
GitLab CI.
To get started, configure an OCI mirror using ``oci://`` as the scheme,
and optionally specify a username and password (or personal access token):
.. code-block:: console
$ spack mirror add --oci-username username --oci-password password my_registry oci://example.com/my_image
Spack follows the naming conventions of Docker, with Dockerhub as the default
registry. To use Dockerhub, you can omit the registry domain:
.. code-block:: console
$ spack mirror add --oci-username username --oci-password password my_registry oci://username/my_image
From here, you can use the mirror as any other build cache:
.. code-block:: console
$ spack buildcache push my_registry <specs...> # push to the registry
$ spack install <specs...> # install from the registry
A unique feature of buildcaches on top of OCI registries is that it's incredibly
easy to generate get a runnable container image with the binaries installed. This
is a great way to make applications available to users without requiring them to
install Spack -- all you need is Docker, Podman or any other OCI-compatible container
runtime.
To produce container images, all you need to do is add the ``--base-image`` flag
when pushing to the build cache:
.. code-block:: console
$ spack buildcache push --base-image ubuntu:20.04 my_registry ninja
Pushed to example.com/my_image:ninja-1.11.1-yxferyhmrjkosgta5ei6b4lqf6bxbscz.spack
$ docker run -it example.com/my_image:ninja-1.11.1-yxferyhmrjkosgta5ei6b4lqf6bxbscz.spack
root@e4c2b6f6b3f4:/# ninja --version
1.11.1
If ``--base-image`` is not specified, distroless images are produced. In practice,
you won't be able to run these as containers, since they don't come with libc and
other system dependencies. However, they are still compatible with tools like
``skopeo``, ``podman``, and ``docker`` for pulling and pushing.
.. note::
The docker ``overlayfs2`` storage driver is limited to 128 layers, above which a
``max depth exceeded`` error may be produced when pulling the image. There
are `alternative drivers <https://docs.docker.com/storage/storagedriver/>`_.
------------------------------------
Spack build cache for GitHub Actions
------------------------------------
To significantly speed up Spack in GitHub Actions, binaries can be cached in
GitHub Packages. This service is an OCI registry that can be linked to a GitHub
repository.
A typical workflow is to include a ``spack.yaml`` environment in your repository
that specifies the packages to install, the target architecture, and the build
cache to use under ``mirrors``:
.. code-block:: yaml
spack:
specs:
- python@3.11
config:
install_tree:
root: /opt/spack
padded_length: 128
packages:
all:
require: target=x86_64_v2
mirrors:
local-buildcache: oci://ghcr.io/<organization>/<repository>
A GitHub action can then be used to install the packages and push them to the
build cache:
.. code-block:: yaml
name: Install Spack packages
on: push
env:
SPACK_COLOR: always
jobs:
example:
runs-on: ubuntu-22.04
permissions:
packages: write
steps:
- name: Checkout
uses: actions/checkout@v3
- name: Checkout Spack
uses: actions/checkout@v3
with:
repository: spack/spack
path: spack
- name: Setup Spack
run: echo "$PWD/spack/bin" >> "$GITHUB_PATH"
- name: Concretize
run: spack -e . concretize
- name: Install
run: spack -e . install --no-check-signature
- name: Run tests
run: ./my_view/bin/python3 -c 'print("hello world")'
- name: Push to buildcache
run: |
spack -e . mirror set --oci-username ${{ github.actor }} --oci-password "${{ secrets.GITHUB_TOKEN }}" local-buildcache
spack -e . buildcache push --base-image ubuntu:22.04 --unsigned --update-index local-buildcache
if: ${{ !cancelled() }}
The first time this action runs, it will build the packages from source and
push them to the build cache. Subsequent runs will pull the binaries from the
build cache. The concretizer will ensure that prebuilt binaries are favored
over source builds.
The build cache entries appear in the GitHub Packages section of your repository,
and contain instructions for pulling and running them with ``docker`` or ``podman``.
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Using Spack's public build cache for GitHub Actions
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Spack offers a public build cache for GitHub Actions with a set of common packages,
which lets you get started quickly. See the following resources for more information:
* `spack/github-actions-buildcache <https://github.com/spack/github-actions-buildcache>`_
.. _cmd-spack-buildcache:

View File

@@ -3,6 +3,103 @@
SPDX-License-Identifier: (Apache-2.0 OR MIT)
.. _concretizer-options:
==========================================
Concretization Settings (concretizer.yaml)
==========================================
The ``concretizer.yaml`` configuration file allows to customize aspects of the
algorithm used to select the dependencies you install. The default configuration
is the following:
.. literalinclude:: _spack_root/etc/spack/defaults/concretizer.yaml
:language: yaml
--------------------------------
Reuse already installed packages
--------------------------------
The ``reuse`` attribute controls whether Spack will prefer to use installed packages (``true``), or
whether it will do a "fresh" installation and prefer the latest settings from
``package.py`` files and ``packages.yaml`` (``false``).
You can use:
.. code-block:: console
% spack install --reuse <spec>
to enable reuse for a single installation, and you can use:
.. code-block:: console
spack install --fresh <spec>
to do a fresh install if ``reuse`` is enabled by default.
``reuse: true`` is the default.
------------------------------------------
Selection of the target microarchitectures
------------------------------------------
The options under the ``targets`` attribute control which targets are considered during a solve.
Currently the options in this section are only configurable from the ``concretizer.yaml`` file
and there are no corresponding command line arguments to enable them for a single solve.
The ``granularity`` option can take two possible values: ``microarchitectures`` and ``generic``.
If set to:
.. code-block:: yaml
concretizer:
targets:
granularity: microarchitectures
Spack will consider all the microarchitectures known to ``archspec`` to label nodes for
compatibility. If instead the option is set to:
.. code-block:: yaml
concretizer:
targets:
granularity: generic
Spack will consider only generic microarchitectures. For instance, when running on an
Haswell node, Spack will consider ``haswell`` as the best target in the former case and
``x86_64_v3`` as the best target in the latter case.
The ``host_compatible`` option is a Boolean option that determines whether or not the
microarchitectures considered during the solve are constrained to be compatible with the
host Spack is currently running on. For instance, if this option is set to ``true``, a
user cannot concretize for ``target=icelake`` while running on an Haswell node.
---------------
Duplicate nodes
---------------
The ``duplicates`` attribute controls whether the DAG can contain multiple configurations of
the same package. This is mainly relevant for build dependencies, which may have their version
pinned by some nodes, and thus be required at different versions by different nodes in the same
DAG.
The ``strategy`` option controls how the solver deals with duplicates. If the value is ``none``,
then a single configuration per package is allowed in the DAG. This means, for instance, that only
a single ``cmake`` or a single ``py-setuptools`` version is allowed. The result would be a slightly
faster concretization, at the expense of making a few specs unsolvable.
If the value is ``minimal`` Spack will allow packages tagged as ``build-tools`` to have duplicates.
This allows, for instance, to concretize specs whose nodes require different, and incompatible, ranges
of some build tool. For instance, in the figure below the latest `py-shapely` requires a newer `py-setuptools`,
while `py-numpy` still needs an older version:
.. figure:: images/shapely_duplicates.svg
:scale: 70 %
:align: center
Up to Spack v0.20 ``duplicates:strategy:none`` was the default (and only) behavior. From Spack v0.21 the
default behavior is ``duplicates:strategy:minimal``.
.. _build-settings:
================================
@@ -232,76 +329,6 @@ Specific limitations include:
then Spack will not add a new external entry (``spack config blame packages``
can help locate all external entries).
.. _concretizer-options:
----------------------
Concretizer options
----------------------
``packages.yaml`` gives the concretizer preferences for specific packages,
but you can also use ``concretizer.yaml`` to customize aspects of the
algorithm it uses to select the dependencies you install:
.. literalinclude:: _spack_root/etc/spack/defaults/concretizer.yaml
:language: yaml
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Reuse already installed packages
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
The ``reuse`` attribute controls whether Spack will prefer to use installed packages (``true``), or
whether it will do a "fresh" installation and prefer the latest settings from
``package.py`` files and ``packages.yaml`` (``false``).
You can use:
.. code-block:: console
% spack install --reuse <spec>
to enable reuse for a single installation, and you can use:
.. code-block:: console
spack install --fresh <spec>
to do a fresh install if ``reuse`` is enabled by default.
``reuse: true`` is the default.
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Selection of the target microarchitectures
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
The options under the ``targets`` attribute control which targets are considered during a solve.
Currently the options in this section are only configurable from the ``concretizer.yaml`` file
and there are no corresponding command line arguments to enable them for a single solve.
The ``granularity`` option can take two possible values: ``microarchitectures`` and ``generic``.
If set to:
.. code-block:: yaml
concretizer:
targets:
granularity: microarchitectures
Spack will consider all the microarchitectures known to ``archspec`` to label nodes for
compatibility. If instead the option is set to:
.. code-block:: yaml
concretizer:
targets:
granularity: generic
Spack will consider only generic microarchitectures. For instance, when running on an
Haswell node, Spack will consider ``haswell`` as the best target in the former case and
``x86_64_v3`` as the best target in the latter case.
The ``host_compatible`` option is a Boolean option that determines whether or not the
microarchitectures considered during the solve are constrained to be compatible with the
host Spack is currently running on. For instance, if this option is set to ``true``, a
user cannot concretize for ``target=icelake`` while running on an Haswell node.
.. _package-requirements:
--------------------
@@ -499,56 +526,52 @@ Package Preferences
In some cases package requirements can be too strong, and package
preferences are the better option. Package preferences do not impose
constraints on packages for particular versions or variants values,
they rather only set defaults -- the concretizer is free to change
them if it must due to other constraints. Also note that package
preferences are of lower priority than reuse of already installed
packages.
they rather only set defaults. The concretizer is free to change
them if it must, due to other constraints, and also prefers reusing
installed packages over building new ones that are a better match for
preferences.
Here's an example ``packages.yaml`` file that sets preferred packages:
Most package preferences (``compilers``, ``target`` and ``providers``)
can only be set globally under the ``all`` section of ``packages.yaml``:
.. code-block:: yaml
packages:
all:
compiler: [gcc@12.2.0, clang@12:, oneapi@2023:]
target: [x86_64_v3]
providers:
mpi: [mvapich2, mpich, openmpi]
These preferences override Spack's default and effectively reorder priorities
when looking for the best compiler, target or virtual package provider. Each
preference takes an ordered list of spec constraints, with earlier entries in
the list being preferred over later entries.
In the example above all packages prefer to be compiled with ``gcc@12.2.0``,
to target the ``x86_64_v3`` microarchitecture and to use ``mvapich2`` if they
depend on ``mpi``.
The ``variants`` and ``version`` preferences can be set under
package specific sections of the ``packages.yaml`` file:
.. code-block:: yaml
packages:
opencv:
compiler: [gcc@4.9]
variants: +debug
gperftools:
version: [2.2, 2.4, 2.3]
all:
compiler: [gcc@4.4.7, 'gcc@4.6:', intel, clang, pgi]
target: [sandybridge]
providers:
mpi: [mvapich2, mpich, openmpi]
At a high level, this example is specifying how packages are preferably
concretized. The opencv package should prefer using GCC 4.9 and
be built with debug options. The gperftools package should prefer version
2.2 over 2.4. Every package on the system should prefer mvapich2 for
its MPI and GCC 4.4.7 (except for opencv, which overrides this by preferring GCC 4.9).
These options are used to fill in implicit defaults. Any of them can be overwritten
on the command line if explicitly requested.
In this case, the preference for ``opencv`` is to build with debug options, while
``gperftools`` prefers version 2.2 over 2.4.
Package preferences accept the follow keys or components under
the specific package (or ``all``) section: ``compiler``, ``variants``,
``version``, ``providers``, and ``target``. Each component has an
ordered list of spec ``constraints``, with earlier entries in the
list being preferred over later entries.
Any preference can be overwritten on the command line if explicitly requested.
Sometimes a package installation may have constraints that forbid
the first concretization rule, in which case Spack will use the first
legal concretization rule. Going back to the example, if a user
requests gperftools 2.3 or later, then Spack will install version 2.4
as the 2.4 version of gperftools is preferred over 2.3.
An explicit concretization rule in the preferred section will always
take preference over unlisted concretizations. In the above example,
xlc isn't listed in the compiler list. Every listed compiler from
gcc to pgi will thus be preferred over the xlc compiler.
The syntax for the ``provider`` section differs slightly from other
concretization rules. A provider lists a value that packages may
``depends_on`` (e.g, MPI) and a list of rules for fulfilling that
dependency.
Preferences cannot overcome explicit constraints, as they only set a preferred
ordering among homogeneous attribute values. Going back to the example, if
``gperftools@2.3:`` was requested, then Spack will install version 2.4
since the most preferred version 2.2 is prohibited by the version constraint.
.. _package_permissions:

View File

@@ -127,9 +127,9 @@ check out a commit from the ``master`` branch, you would want to add:
.. code-block:: python
depends_on('autoconf', type='build', when='@master')
depends_on('automake', type='build', when='@master')
depends_on('libtool', type='build', when='@master')
depends_on("autoconf", type="build", when="@master")
depends_on("automake", type="build", when="@master")
depends_on("libtool", type="build", when="@master")
It is typically redundant to list the ``m4`` macro processor package as a
dependency, since ``autoconf`` already depends on it.
@@ -145,7 +145,7 @@ example, the ``bash`` shell is used to run the ``autogen.sh`` script.
.. code-block:: python
def autoreconf(self, spec, prefix):
which('bash')('autogen.sh')
which("bash")("autogen.sh")
"""""""""""""""""""""""""""""""""""""""
patching configure or Makefile.in files
@@ -186,9 +186,9 @@ To opt out of this feature, use the following setting:
To enable it conditionally on different architectures, define a property and
make the package depend on ``gnuconfig`` as a build dependency:
.. code-block
.. code-block:: python
depends_on('gnuconfig', when='@1.0:')
depends_on("gnuconfig", when="@1.0:")
@property
def patch_config_files(self):
@@ -230,7 +230,7 @@ version, this can be done like so:
@property
def force_autoreconf(self):
return self.version == Version('1.2.3')
return self.version == Version("1.2.3")
^^^^^^^^^^^^^^^^^^^^^^^
Finding configure flags
@@ -278,13 +278,22 @@ function like so:
def configure_args(self):
args = []
if '+mpi' in self.spec:
args.append('--enable-mpi')
if self.spec.satisfies("+mpi"):
args.append("--enable-mpi")
else:
args.append('--disable-mpi')
args.append("--disable-mpi")
return args
Alternatively, you can use the :ref:`enable_or_disable <autotools_enable_or_disable>` helper:
.. code-block:: python
def configure_args(self):
return [self.enable_or_disable("mpi")]
Note that we are explicitly disabling MPI support if it is not
requested. This is important, as many Autotools packages will enable
options by default if the dependencies are found, and disable them
@@ -295,9 +304,11 @@ and `here <https://wiki.gentoo.org/wiki/Project:Quality_Assurance/Automagic_depe
for a rationale as to why these so-called "automagic" dependencies
are a problem.
By default, Autotools installs packages to ``/usr``. We don't want this,
so Spack automatically adds ``--prefix=/path/to/installation/prefix``
to your list of ``configure_args``. You don't need to add this yourself.
.. note::
By default, Autotools installs packages to ``/usr``. We don't want this,
so Spack automatically adds ``--prefix=/path/to/installation/prefix``
to your list of ``configure_args``. You don't need to add this yourself.
^^^^^^^^^^^^^^^^
Helper functions
@@ -308,6 +319,8 @@ You may have noticed that most of the Autotools flags are of the form
``--without-baz``. Since these flags are so common, Spack provides a
couple of helper functions to make your life easier.
.. _autotools_enable_or_disable:
"""""""""""""""""
enable_or_disable
"""""""""""""""""
@@ -319,11 +332,11 @@ typically used to enable or disable some feature within the package.
.. code-block:: python
variant(
'memchecker',
"memchecker",
default=False,
description='Memchecker support for debugging [degrades performance]'
description="Memchecker support for debugging [degrades performance]"
)
config_args.extend(self.enable_or_disable('memchecker'))
config_args.extend(self.enable_or_disable("memchecker"))
In this example, specifying the variant ``+memchecker`` will generate
the following configuration options:
@@ -343,15 +356,15 @@ the ``with_or_without`` method.
.. code-block:: python
variant(
'schedulers',
"schedulers",
values=disjoint_sets(
('auto',), ('alps', 'lsf', 'tm', 'slurm', 'sge', 'loadleveler')
).with_non_feature_values('auto', 'none'),
("auto",), ("alps", "lsf", "tm", "slurm", "sge", "loadleveler")
).with_non_feature_values("auto", "none"),
description="List of schedulers for which support is enabled; "
"'auto' lets openmpi determine",
)
if 'schedulers=auto' not in spec:
config_args.extend(self.with_or_without('schedulers'))
if not spec.satisfies("schedulers=auto"):
config_args.extend(self.with_or_without("schedulers"))
In this example, specifying the variant ``schedulers=slurm,sge`` will
generate the following configuration options:
@@ -376,16 +389,16 @@ generated, using the ``activation_value`` argument to
.. code-block:: python
variant(
'fabrics',
"fabrics",
values=disjoint_sets(
('auto',), ('psm', 'psm2', 'verbs', 'mxm', 'ucx', 'libfabric')
).with_non_feature_values('auto', 'none'),
("auto",), ("psm", "psm2", "verbs", "mxm", "ucx", "libfabric")
).with_non_feature_values("auto", "none"),
description="List of fabrics that are enabled; "
"'auto' lets openmpi determine",
)
if 'fabrics=auto' not in spec:
config_args.extend(self.with_or_without('fabrics',
activation_value='prefix'))
if not spec.satisfies("fabrics=auto"):
config_args.extend(self.with_or_without("fabrics",
activation_value="prefix"))
``activation_value`` accepts a callable that generates the configure
parameter value given the variant value; but the special value
@@ -409,16 +422,16 @@ When Spack variants and configure flags do not correspond one-to-one, the
.. code-block:: python
variant('debug_tools', default=False)
config_args += self.enable_or_disable('debug-tools', variant='debug_tools')
variant("debug_tools", default=False)
config_args += self.enable_or_disable("debug-tools", variant="debug_tools")
Or when one variant controls multiple flags:
.. code-block:: python
variant('debug_tools', default=False)
config_args += self.with_or_without('memchecker', variant='debug_tools')
config_args += self.with_or_without('profiler', variant='debug_tools')
variant("debug_tools", default=False)
config_args += self.with_or_without("memchecker", variant="debug_tools")
config_args += self.with_or_without("profiler", variant="debug_tools")
""""""""""""""""""""
@@ -432,8 +445,8 @@ For example:
.. code-block:: python
variant('profiler', when='@2.0:')
config_args += self.with_or_without('profiler')
variant("profiler", when="@2.0:")
config_args += self.with_or_without("profiler")
will neither add ``--with-profiler`` nor ``--without-profiler`` when the version is
below ``2.0``.
@@ -452,10 +465,10 @@ the variant values require atypical behavior.
def with_or_without_verbs(self, activated):
# Up through version 1.6, this option was named --with-openib.
# In version 1.7, it was renamed to be --with-verbs.
opt = 'verbs' if self.spec.satisfies('@1.7:') else 'openib'
opt = "verbs" if self.spec.satisfies("@1.7:") else "openib"
if not activated:
return '--without-{0}'.format(opt)
return '--with-{0}={1}'.format(opt, self.spec['rdma-core'].prefix)
return f"--without-{opt}"
return f"--with-{opt}={self.spec['rdma-core'].prefix}"
Defining ``with_or_without_verbs`` overrides the behavior of a
``fabrics=verbs`` variant, changing the configure-time option to
@@ -479,7 +492,7 @@ do this like so:
.. code-block:: python
configure_directory = 'src'
configure_directory = "src"
^^^^^^^^^^^^^^^^^^^^^^
Building out of source
@@ -491,7 +504,7 @@ This can be done using the ``build_directory`` variable:
.. code-block:: python
build_directory = 'spack-build'
build_directory = "spack-build"
By default, Spack will build the package in the same directory that
contains the ``configure`` script
@@ -514,8 +527,8 @@ library or build the documentation, you can add these like so:
.. code-block:: python
build_targets = ['all', 'docs']
install_targets = ['install', 'docs']
build_targets = ["all", "docs"]
install_targets = ["install", "docs"]
^^^^^^^
Testing

View File

@@ -87,7 +87,7 @@ A typical usage of these methods may look something like this:
.. code-block:: python
def initconfig_mpi_entries(self)
def initconfig_mpi_entries(self):
# Get existing MPI configurations
entries = super(self, Foo).initconfig_mpi_entries()
@@ -95,25 +95,25 @@ A typical usage of these methods may look something like this:
# This spec has an MPI variant, and we need to enable MPI when it is on.
# This hypothetical package controls MPI with the ``FOO_MPI`` option to
# cmake.
if '+mpi' in self.spec:
entries.append(cmake_cache_option('FOO_MPI', True, "enable mpi"))
if self.spec.satisfies("+mpi"):
entries.append(cmake_cache_option("FOO_MPI", True, "enable mpi"))
else:
entries.append(cmake_cache_option('FOO_MPI', False, "disable mpi"))
entries.append(cmake_cache_option("FOO_MPI", False, "disable mpi"))
def initconfig_package_entries(self):
# Package specific options
entries = []
entries.append('#Entries for build options')
entries.append("#Entries for build options")
bar_on = '+bar' in self.spec
entries.append(cmake_cache_option('FOO_BAR', bar_on, 'toggle bar'))
bar_on = self.spec.satisfies("+bar")
entries.append(cmake_cache_option("FOO_BAR", bar_on, "toggle bar"))
entries.append('#Entries for dependencies')
entries.append("#Entries for dependencies")
if self.spec['blas'].name == 'baz': # baz is our blas provider
entries.append(cmake_cache_string('FOO_BLAS', 'baz', 'Use baz'))
entries.append(cmake_cache_path('BAZ_PREFIX', self.spec['baz'].prefix))
if self.spec["blas"].name == "baz": # baz is our blas provider
entries.append(cmake_cache_string("FOO_BLAS", "baz", "Use baz"))
entries.append(cmake_cache_path("BAZ_PREFIX", self.spec["baz"].prefix))
^^^^^^^^^^^^^^^^^^^^^^
External documentation

View File

@@ -54,8 +54,8 @@ to terminate such build attempts with a suitable message:
.. code-block:: python
conflicts('cuda_arch=none', when='+cuda',
msg='CUDA architecture is required')
conflicts("cuda_arch=none", when="+cuda",
msg="CUDA architecture is required")
Similarly, if your software does not support all versions of the property,
you could add ``conflicts`` to your package for those versions. For example,
@@ -66,13 +66,13 @@ custom message should a user attempt such a build:
.. code-block:: python
unsupported_cuda_archs = [
'10', '11', '12', '13',
'20', '21',
'30', '32', '35', '37'
"10", "11", "12", "13",
"20", "21",
"30", "32", "35", "37"
]
for value in unsupported_cuda_archs:
conflicts('cuda_arch={0}'.format(value), when='+cuda',
msg='CUDA architecture {0} is not supported'.format(value))
conflicts(f"cuda_arch={value}", when="+cuda",
msg=f"CUDA architecture {value} is not supported")
^^^^^^^
Methods
@@ -107,16 +107,16 @@ class of your package. For example, you can add it to your
spec = self.spec
args = []
...
if '+cuda' in spec:
if spec.satisfies("+cuda"):
# Set up the cuda macros needed by the build
args.append('-DWITH_CUDA=ON')
cuda_arch_list = spec.variants['cuda_arch'].value
args.append("-DWITH_CUDA=ON")
cuda_arch_list = spec.variants["cuda_arch"].value
cuda_arch = cuda_arch_list[0]
if cuda_arch != 'none':
args.append('-DCUDA_FLAGS=-arch=sm_{0}'.format(cuda_arch))
if cuda_arch != "none":
args.append(f"-DCUDA_FLAGS=-arch=sm_{cuda_arch}")
else:
# Ensure build with cuda is disabled
args.append('-DWITH_CUDA=OFF')
args.append("-DWITH_CUDA=OFF")
...
return args
@@ -125,7 +125,7 @@ You will need to customize options as needed for your build.
This example also illustrates how to check for the ``cuda`` variant using
``self.spec`` and how to retrieve the ``cuda_arch`` variant's value, which
is a list, using ``self.spec.variants['cuda_arch'].value``.
is a list, using ``self.spec.variants["cuda_arch"].value``.
With over 70 packages using ``CudaPackage`` as of January 2021 there are
lots of examples to choose from to get more ideas for using this package.

View File

@@ -57,13 +57,13 @@ If you look at the ``perl`` package, you'll see:
.. code-block:: python
phases = ['configure', 'build', 'install']
phases = ["configure", "build", "install"]
Similarly, ``cmake`` defines:
.. code-block:: python
phases = ['bootstrap', 'build', 'install']
phases = ["bootstrap", "build", "install"]
If we look at the ``cmake`` example, this tells Spack's ``PackageBase``
class to run the ``bootstrap``, ``build``, and ``install`` functions
@@ -78,7 +78,7 @@ If we look at ``perl``, we see that it defines a ``configure`` method:
.. code-block:: python
def configure(self, spec, prefix):
configure = Executable('./Configure')
configure = Executable("./Configure")
configure(*self.configure_args())
There is also a corresponding ``configure_args`` function that handles
@@ -92,7 +92,7 @@ phases are pretty simple:
make()
def install(self, spec, prefix):
make('install')
make("install")
The ``cmake`` package looks very similar, but with a ``bootstrap``
function instead of ``configure``:
@@ -100,14 +100,14 @@ function instead of ``configure``:
.. code-block:: python
def bootstrap(self, spec, prefix):
bootstrap = Executable('./bootstrap')
bootstrap = Executable("./bootstrap")
bootstrap(*self.bootstrap_args())
def build(self, spec, prefix):
make()
def install(self, spec, prefix):
make('install')
make("install")
Again, there is a ``boostrap_args`` function that determines the
correct bootstrap flags to use.
@@ -128,16 +128,16 @@ before or after a particular phase. For example, in ``perl``, we see:
.. code-block:: python
@run_after('install')
@run_after("install")
def install_cpanm(self):
spec = self.spec
if '+cpanm' in spec:
with working_dir(join_path('cpanm', 'cpanm')):
perl = spec['perl'].command
perl('Makefile.PL')
if spec.satisfies("+cpanm"):
with working_dir(join_path("cpanm", "cpanm")):
perl = spec["perl"].command
perl("Makefile.PL")
make()
make('install')
make("install")
This extra step automatically installs ``cpanm`` in addition to the
base Perl installation.
@@ -174,10 +174,10 @@ In the ``perl`` package, we can see:
.. code-block:: python
@run_after('build')
@run_after("build")
@on_package_attributes(run_tests=True)
def test(self):
make('test')
make("test")
As you can guess, this runs ``make test`` *after* building the package,
if and only if testing is requested. Again, this is not specific to
@@ -189,7 +189,7 @@ custom build systems, it can be added to existing build systems as well.
.. code-block:: python
@run_after('install')
@run_after("install")
@on_package_attributes(run_tests=True)
works as expected. However, if you reverse the ordering:
@@ -197,7 +197,7 @@ custom build systems, it can be added to existing build systems as well.
.. code-block:: python
@on_package_attributes(run_tests=True)
@run_after('install')
@run_after("install")
the tests will always be run regardless of whether or not
``--test=root`` is requested. See https://github.com/spack/spack/issues/3833

View File

@@ -25,8 +25,8 @@ use Spack to build packages with the tools.
The Spack Python class ``IntelOneapiPackage`` is a base class that is
used by ``IntelOneapiCompilers``, ``IntelOneapiMkl``,
``IntelOneapiTbb`` and other classes to implement the oneAPI
packages. See the :ref:`package-list` for the full list of available
oneAPI packages or use::
packages. Search for ``oneAPI`` at `<packages.spack.io>`_ for the full
list of available oneAPI packages, or use::
spack list -d oneAPI

View File

@@ -59,7 +59,7 @@ using GNU Make, you should add a dependency on ``gmake``:
.. code-block:: python
depends_on('gmake', type='build')
depends_on("gmake", type="build")
^^^^^^^^^^^^^^^^^^^^^^^^^^
@@ -93,8 +93,8 @@ there are any other variables you need to set, you can do this in the
.. code-block:: python
def edit(self, spec, prefix):
env['PREFIX'] = prefix
env['BLASLIB'] = spec['blas'].libs.ld_flags
env["PREFIX"] = prefix
env["BLASLIB"] = spec["blas"].libs.ld_flags
`cbench <https://github.com/spack/spack/blob/develop/var/spack/repos/builtin/packages/cbench/package.py>`_
@@ -113,7 +113,7 @@ you can do this like so:
.. code-block:: python
build_targets = ['CC=cc']
build_targets = ["CC=cc"]
If you do need access to the spec, you can create a property like so:
@@ -125,8 +125,8 @@ If you do need access to the spec, you can create a property like so:
spec = self.spec
return [
'CC=cc',
'BLASLIB={0}'.format(spec['blas'].libs.ld_flags),
"CC=cc",
f"BLASLIB={spec['blas'].libs.ld_flags}",
]
@@ -145,12 +145,12 @@ and a ``filter_file`` method to help with this. For example:
.. code-block:: python
def edit(self, spec, prefix):
makefile = FileFilter('Makefile')
makefile = FileFilter("Makefile")
makefile.filter(r'^\s*CC\s*=.*', 'CC = ' + spack_cc)
makefile.filter(r'^\s*CXX\s*=.*', 'CXX = ' + spack_cxx)
makefile.filter(r'^\s*F77\s*=.*', 'F77 = ' + spack_f77)
makefile.filter(r'^\s*FC\s*=.*', 'FC = ' + spack_fc)
makefile.filter(r"^\s*CC\s*=.*", f"CC = {spack_cc}")
makefile.filter(r"^\s*CXX\s*=.*", f"CXX = {spack_cxx}")
makefile.filter(r"^\s*F77\s*=.*", f"F77 = {spack_f77}")
makefile.filter(r"^\s*FC\s*=.*", f"FC = {spack_fc}")
`stream <https://github.com/spack/spack/blob/develop/var/spack/repos/builtin/packages/stream/package.py>`_
@@ -181,16 +181,16 @@ well for storing variables:
def edit(self, spec, prefix):
config = {
'CC': 'cc',
'MAKE': 'make',
"CC": "cc",
"MAKE": "make",
}
if '+blas' in spec:
config['BLAS_LIBS'] = spec['blas'].libs.joined()
if spec.satisfies("+blas"):
config["BLAS_LIBS"] = spec["blas"].libs.joined()
with open('make.inc', 'w') as inc:
with open("make.inc", "w") as inc:
for key in config:
inc.write('{0} = {1}\n'.format(key, config[key]))
inc.write(f"{key} = {config[key]}\n")
`elk <https://github.com/spack/spack/blob/develop/var/spack/repos/builtin/packages/elk/package.py>`_
@@ -204,14 +204,14 @@ them in a list:
def edit(self, spec, prefix):
config = [
'INSTALL_DIR = {0}'.format(prefix),
'INCLUDE_DIR = $(INSTALL_DIR)/include',
'LIBRARY_DIR = $(INSTALL_DIR)/lib',
f"INSTALL_DIR = {prefix}",
"INCLUDE_DIR = $(INSTALL_DIR)/include",
"LIBRARY_DIR = $(INSTALL_DIR)/lib",
]
with open('make.inc', 'w') as inc:
with open("make.inc", "w") as inc:
for var in config:
inc.write('{0}\n'.format(var))
inc.write(f"{var}\n")
`hpl <https://github.com/spack/spack/blob/develop/var/spack/repos/builtin/packages/hpl/package.py>`_
@@ -284,7 +284,7 @@ can tell Spack where to locate it like so:
.. code-block:: python
build_directory = 'src'
build_directory = "src"
^^^^^^^^^^^^^^^^^^^
@@ -299,8 +299,8 @@ install the package:
def install(self, spec, prefix):
mkdir(prefix.bin)
install('foo', prefix.bin)
install_tree('lib', prefix.lib)
install("foo", prefix.bin)
install_tree("lib", prefix.lib)
^^^^^^^^^^^^^^^^^^^^^^

View File

@@ -152,16 +152,16 @@ set. Once set, ``pypi`` will be used to define the ``homepage``,
.. code-block:: python
homepage = 'https://pypi.org/project/setuptools/'
url = 'https://pypi.org/packages/source/s/setuptools/setuptools-49.2.0.zip'
list_url = 'https://pypi.org/simple/setuptools/'
homepage = "https://pypi.org/project/setuptools/"
url = "https://pypi.org/packages/source/s/setuptools/setuptools-49.2.0.zip"
list_url = "https://pypi.org/simple/setuptools/"
is equivalent to:
.. code-block:: python
pypi = 'setuptools/setuptools-49.2.0.zip'
pypi = "setuptools/setuptools-49.2.0.zip"
If a package has a different homepage listed on PyPI, you can
@@ -208,7 +208,7 @@ dependencies to your package:
.. code-block:: python
depends_on('py-setuptools@42:', type='build')
depends_on("py-setuptools@42:", type="build")
Note that ``py-wheel`` is already listed as a build dependency in the
@@ -232,7 +232,7 @@ Look for dependencies under the following keys:
* ``dependencies`` under ``[project]``
These packages are required for building and installation. You can
add them with ``type=('build', 'run')``.
add them with ``type=("build", "run")``.
* ``[project.optional-dependencies]``
@@ -279,12 +279,12 @@ distutils library, and has almost the exact same API. In addition to
* ``setup_requires``
These packages are usually only needed at build-time, so you can
add them with ``type='build'``.
add them with ``type="build"``.
* ``install_requires``
These packages are required for building and installation. You can
add them with ``type=('build', 'run')``.
add them with ``type=("build", "run")``.
* ``extras_require``
@@ -296,7 +296,7 @@ distutils library, and has almost the exact same API. In addition to
These are packages that are required to run the unit tests for the
package. These dependencies can be specified using the
``type='test'`` dependency type. However, the PyPI tarballs rarely
``type="test"`` dependency type. However, the PyPI tarballs rarely
contain unit tests, so there is usually no reason to add these.
See https://setuptools.pypa.io/en/latest/userguide/dependency_management.html
@@ -321,7 +321,7 @@ older versions of flit may use the following keys:
* ``requires`` under ``[tool.flit.metadata]``
These packages are required for building and installation. You can
add them with ``type=('build', 'run')``.
add them with ``type=("build", "run")``.
* ``[tool.flit.metadata.requires-extra]``
@@ -434,12 +434,12 @@ the BLAS/LAPACK library you want pkg-config to search for:
.. code-block:: python
depends_on('py-pip@22.1:', type='build')
depends_on("py-pip@22.1:", type="build")
def config_settings(self, spec, prefix):
return {
'blas': spec['blas'].libs.names[0],
'lapack': spec['lapack'].libs.names[0],
"blas": spec["blas"].libs.names[0],
"lapack": spec["lapack"].libs.names[0],
}
@@ -463,10 +463,10 @@ has an optional dependency on ``libyaml`` that can be enabled like so:
def global_options(self, spec, prefix):
options = []
if '+libyaml' in spec:
options.append('--with-libyaml')
if spec.satisfies("+libyaml"):
options.append("--with-libyaml")
else:
options.append('--without-libyaml')
options.append("--without-libyaml")
return options
@@ -492,10 +492,10 @@ allows you to specify the directories to search for ``libyaml``:
def install_options(self, spec, prefix):
options = []
if '+libyaml' in spec:
if spec.satisfies("+libyaml"):
options.extend([
spec['libyaml'].libs.search_flags,
spec['libyaml'].headers.include_flags,
spec["libyaml"].libs.search_flags,
spec["libyaml"].headers.include_flags,
])
return options
@@ -556,7 +556,7 @@ detected are wrong, you can provide the names yourself by overriding
.. code-block:: python
import_modules = ['six']
import_modules = ["six"]
Sometimes the list of module names to import depends on how the
@@ -571,9 +571,9 @@ This can be expressed like so:
@property
def import_modules(self):
modules = ['yaml']
if '+libyaml' in self.spec:
modules.append('yaml.cyaml')
modules = ["yaml"]
if self.spec.satisfies("+libyaml"):
modules.append("yaml.cyaml")
return modules
@@ -586,14 +586,14 @@ Instead of defining the ``import_modules`` explicitly, only the subset
of module names to be skipped can be defined by using ``skip_modules``.
If a defined module has submodules, they are skipped as well, e.g.,
in case the ``plotting`` modules should be excluded from the
automatically detected ``import_modules`` ``['nilearn', 'nilearn.surface',
'nilearn.plotting', 'nilearn.plotting.data']`` set:
automatically detected ``import_modules`` ``["nilearn", "nilearn.surface",
"nilearn.plotting", "nilearn.plotting.data"]`` set:
.. code-block:: python
skip_modules = ['nilearn.plotting']
skip_modules = ["nilearn.plotting"]
This will set ``import_modules`` to ``['nilearn', 'nilearn.surface']``
This will set ``import_modules`` to ``["nilearn", "nilearn.surface"]``
Import tests can be run during the installation using ``spack install
--test=root`` or at any time after the installation using
@@ -612,11 +612,11 @@ after the ``install`` phase:
.. code-block:: python
@run_after('install')
@run_after("install")
@on_package_attributes(run_tests=True)
def install_test(self):
with working_dir('spack-test', create=True):
python('-c', 'import numpy; numpy.test("full", verbose=2)')
with working_dir("spack-test", create=True):
python("-c", "import numpy; numpy.test('full', verbose=2)")
when testing is enabled during the installation (i.e., ``spack install
@@ -638,7 +638,7 @@ provides Python bindings in a ``python`` directory, you can use:
.. code-block:: python
build_directory = 'python'
build_directory = "python"
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

View File

@@ -81,28 +81,27 @@ class of your package. For example, you can add it to your
class MyRocmPackage(CMakePackage, ROCmPackage):
...
# Ensure +rocm and amdgpu_targets are passed to dependencies
depends_on('mydeppackage', when='+rocm')
depends_on("mydeppackage", when="+rocm")
for val in ROCmPackage.amdgpu_targets:
depends_on('mydeppackage amdgpu_target={0}'.format(val),
when='amdgpu_target={0}'.format(val))
depends_on(f"mydeppackage amdgpu_target={val}",
when=f"amdgpu_target={val}")
...
def cmake_args(self):
spec = self.spec
args = []
...
if '+rocm' in spec:
if spec.satisfies("+rocm"):
# Set up the hip macros needed by the build
args.extend([
'-DENABLE_HIP=ON',
'-DHIP_ROOT_DIR={0}'.format(spec['hip'].prefix)])
rocm_archs = spec.variants['amdgpu_target'].value
if 'none' not in rocm_archs:
args.append('-DHIP_HIPCC_FLAGS=--amdgpu-target={0}'
.format(",".join(rocm_archs)))
"-DENABLE_HIP=ON",
f"-DHIP_ROOT_DIR={spec['hip'].prefix}"])
rocm_archs = spec.variants["amdgpu_target"].value
if "none" not in rocm_archs:
args.append(f"-DHIP_HIPCC_FLAGS=--amdgpu-target={','.join(rocm_archs}")
else:
# Ensure build with hip is disabled
args.append('-DENABLE_HIP=OFF')
args.append("-DENABLE_HIP=OFF")
...
return args
...
@@ -114,7 +113,7 @@ build.
This example also illustrates how to check for the ``rocm`` variant using
``self.spec`` and how to retrieve the ``amdgpu_target`` variant's value
using ``self.spec.variants['amdgpu_target'].value``.
using ``self.spec.variants["amdgpu_target"].value``.
All five packages using ``ROCmPackage`` as of January 2021 also use the
:ref:`CudaPackage <cudapackage>`. So it is worth looking at those packages

View File

@@ -57,7 +57,7 @@ overridden like so:
.. code-block:: python
def test(self):
scons('check')
scons("check")
^^^^^^^^^^^^^^^
@@ -88,7 +88,7 @@ base class already contains:
.. code-block:: python
depends_on('scons', type='build')
depends_on("scons", type="build")
If you want to specify a particular version requirement, you can override
@@ -96,7 +96,7 @@ this in your package:
.. code-block:: python
depends_on('scons@2.3.0:', type='build')
depends_on("scons@2.3.0:", type="build")
^^^^^^^^^^^^^^^^^^^^^^^^^
@@ -238,14 +238,14 @@ the package build phase. This is done by overriding ``build_args`` like so:
def build_args(self, spec, prefix):
args = [
'PREFIX={0}'.format(prefix),
'ZLIB={0}'.format(spec['zlib'].prefix),
f"PREFIX={prefix}",
f"ZLIB={spec['zlib'].prefix}",
]
if '+debug' in spec:
args.append('DEBUG=yes')
if spec.satisfies("+debug"):
args.append("DEBUG=yes")
else:
args.append('DEBUG=no')
args.append("DEBUG=no")
return args
@@ -275,8 +275,8 @@ environment variables. For example, cantera has the following option:
* env_vars: [ string ]
Environment variables to propagate through to SCons. Either the
string "all" or a comma separated list of variable names, e.g.
'LD_LIBRARY_PATH,HOME'.
- default: 'LD_LIBRARY_PATH,PYTHONPATH'
"LD_LIBRARY_PATH,HOME".
- default: "LD_LIBRARY_PATH,PYTHONPATH"
In the case of cantera, using ``env_vars=all`` allows us to use

View File

@@ -48,9 +48,6 @@
os.environ["COLIFY_SIZE"] = "25x120"
os.environ["COLUMNS"] = "120"
# Generate full package list if needed
subprocess.call(["spack", "list", "--format=html", "--update=package_list.html"])
# Generate a command index if an update is needed
subprocess.call(
[
@@ -207,6 +204,7 @@ def setup(sphinx):
("py:class", "clingo.Control"),
("py:class", "six.moves.urllib.parse.ParseResult"),
("py:class", "TextIO"),
("py:class", "hashlib._Hash"),
# Spack classes that are private and we don't want to expose
("py:class", "spack.provider_index._IndexBase"),
("py:class", "spack.repo._PrependFileLoader"),

View File

@@ -304,3 +304,17 @@ To work properly, this requires your terminal to reset its title after
Spack has finished its work, otherwise Spack's status information will
remain in the terminal's title indefinitely. Most terminals should already
be set up this way and clear Spack's status information.
-----------
``aliases``
-----------
Aliases can be used to define new Spack commands. They can be either shortcuts
for longer commands or include specific arguments for convenience. For instance,
if users want to use ``spack install``'s ``-v`` argument all the time, they can
create a new alias called ``inst`` that will always call ``install -v``:
.. code-block:: yaml
aliases:
inst: install -v

View File

@@ -212,18 +212,12 @@ under the ``container`` attribute of environments:
final:
- libgomp
# Extra instructions
extra_instructions:
final: |
RUN echo 'export PS1="\[$(tput bold)\]\[$(tput setaf 1)\][gromacs]\[$(tput setaf 2)\]\u\[$(tput sgr0)\]:\w $ "' >> ~/.bashrc
# Labels for the image
labels:
app: "gromacs"
mpi: "mpich"
A detailed description of the options available can be found in the
:ref:`container_config_options` section.
A detailed description of the options available can be found in the :ref:`container_config_options` section.
-------------------
Setting Base Images
@@ -525,6 +519,13 @@ the example below:
COPY data /share/myapp/data
{% endblock %}
The Dockerfile is generated by running:
.. code-block:: console
$ spack -e /opt/environment containerize
Note that the environment must be active for spack to read the template.
The recipe that gets generated contains the two extra instruction that we added in our template extension:
.. code-block:: Dockerfile

View File

@@ -310,53 +310,11 @@ Once all of the dependencies are installed, you can try building the documentati
$ make clean
$ make
If you see any warning or error messages, you will have to correct those before
your PR is accepted.
If you are editing the documentation, you should obviously be running the
documentation tests. But even if you are simply adding a new package, your
changes could cause the documentation tests to fail:
.. code-block:: console
package_list.rst:8745: WARNING: Block quote ends without a blank line; unexpected unindent.
At first, this error message will mean nothing to you, since you didn't edit
that file. Until you look at line 8745 of the file in question:
.. code-block:: rst
Description:
NetCDF is a set of software libraries and self-describing, machine-
independent data formats that support the creation, access, and sharing
of array-oriented scientific data.
Our documentation includes :ref:`a list of all Spack packages <package-list>`.
If you add a new package, its docstring is added to this page. The problem in
this case was that the docstring looked like:
.. code-block:: python
class Netcdf(Package):
"""
NetCDF is a set of software libraries and self-describing,
machine-independent data formats that support the creation,
access, and sharing of array-oriented scientific data.
"""
Docstrings cannot start with a newline character, or else Sphinx will complain.
Instead, they should look like:
.. code-block:: python
class Netcdf(Package):
"""NetCDF is a set of software libraries and self-describing,
machine-independent data formats that support the creation,
access, and sharing of array-oriented scientific data."""
Documentation changes can result in much more obfuscated warning messages.
If you don't understand what they mean, feel free to ask when you submit
your PR.
If you see any warning or error messages, you will have to correct those before your PR
is accepted. If you are editing the documentation, you should be running the
documentation tests to make sure there are no errors. Documentation changes can result
in some obfuscated warning messages. If you don't understand what they mean, feel free
to ask when you submit your PR.
--------
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@@ -54,9 +54,16 @@ or refer to the full manual below.
features
getting_started
basic_usage
Tutorial: Spack 101 <https://spack-tutorial.readthedocs.io>
replace_conda_homebrew
.. toctree::
:maxdepth: 2
:caption: Links
Tutorial (spack-tutorial.rtfd.io) <https://spack-tutorial.readthedocs.io>
Packages (packages.spack.io) <https://packages.spack.io>
Binaries (binaries.spack.io) <https://cache.spack.io>
.. toctree::
:maxdepth: 2
:caption: Reference
@@ -72,7 +79,6 @@ or refer to the full manual below.
repositories
binary_caches
command_index
package_list
chain
extensions
pipelines

View File

@@ -519,11 +519,11 @@ inspections and customize them per-module-set.
modules:
prefix_inspections:
bin:
./bin:
- PATH
man:
./man:
- MANPATH
'':
./:
- CMAKE_PREFIX_PATH
Prefix inspections are only applied if the relative path inside the
@@ -579,7 +579,7 @@ the view.
view_relative_modules:
use_view: my_view
prefix_inspections:
bin:
./bin:
- PATH
view:
my_view:

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@@ -1,17 +0,0 @@
.. Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
Spack Project Developers. See the top-level COPYRIGHT file for details.
SPDX-License-Identifier: (Apache-2.0 OR MIT)
.. _package-list:
============
Package List
============
This is a list of things you can install using Spack. It is
automatically generated based on the packages in this Spack
version.
.. raw:: html
:file: package_list.html

View File

@@ -1549,7 +1549,7 @@ its value:
def configure_args(self):
...
if "+shared" in self.spec:
if self.spec.satisfies("+shared"):
extra_args.append("--enable-shared")
else:
extra_args.append("--disable-shared")
@@ -1636,7 +1636,7 @@ Within a package recipe a multi-valued variant is tested using a ``key=value`` s
.. code-block:: python
if "languages=jit" in spec:
if spec.satisfies("languages=jit"):
options.append("--enable-host-shared")
"""""""""""""""""""""""""""""""""""""""""""
@@ -2352,7 +2352,7 @@ the following at the command line of a bash shell:
.. code-block:: console
$ for i in {1..12}; do nohup spack install -j 4 mpich@3.3.2 >> mpich_install.txt 2>&1 &; done
$ for i in {1..12}; do nohup spack install -j 4 mpich@3.3.2 >> mpich_install.txt 2>&1 & done
.. note::
@@ -2557,9 +2557,10 @@ Conditional dependencies
^^^^^^^^^^^^^^^^^^^^^^^^
You may have a package that only requires a dependency under certain
conditions. For example, you may have a package that has optional MPI support,
- MPI is only a dependency when you want to enable MPI support for the
package. In that case, you could say something like:
conditions. For example, you may have a package with optional MPI support.
You would then provide a variant to reflect that the feature is optional
and specify the MPI dependency only applies when MPI support is enabled.
In that case, you could say something like:
.. code-block:: python
@@ -2567,13 +2568,39 @@ package. In that case, you could say something like:
depends_on("mpi", when="+mpi")
``when`` can include constraints on the variant, version, compiler, etc. and
the :mod:`syntax<spack.spec>` is the same as for Specs written on the command
line.
If a dependency/feature of a package isn't typically used, you can save time
by making it conditional (since Spack will not build the dependency unless it
is required for the Spec).
Suppose the above package also has, since version 3, optional `Trilinos`
support and you want them both to build either with or without MPI. Further
suppose you require a version of `Trilinos` no older than 12.6. In that case,
the `trilinos` variant and dependency directives would be:
.. code-block:: python
variant("trilinos", default=False, description="Enable Trilinos support")
depends_on("trilinos@12.6:", when="@3: +trilinos")
depends_on("trilinos@12.6: +mpi", when="@3: +trilinos +mpi")
Alternatively, you could use the `when` context manager to equivalently specify
the `trilinos` variant dependencies as follows:
.. code-block:: python
with when("@3: +trilinos"):
depends_on("trilinos@12.6:")
depends_on("trilinos +mpi", when="+mpi")
The argument to ``when`` in either case can include any Spec constraints that
are supported on the command line using the same :ref:`syntax <sec-specs>`.
.. note::
If a dependency isn't typically used, you can save time by making it
conditional since Spack will not build the dependency unless it is
required for the Spec.
.. _dependency_dependency_patching:
@@ -2661,60 +2688,6 @@ appear in the package file (or in this case, in the list).
right version. If two packages depend on ``binutils`` patched *the
same* way, they can both use a single installation of ``binutils``.
.. _setup-dependent-environment:
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Influence how dependents are built or run
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Spack provides a mechanism for dependencies to influence the
environment of their dependents by overriding the
:meth:`setup_dependent_run_environment <spack.package_base.PackageBase.setup_dependent_run_environment>`
or the
:meth:`setup_dependent_build_environment <spack.builder.Builder.setup_dependent_build_environment>`
methods.
The Qt package, for instance, uses this call:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/qt/package.py
:pyobject: Qt.setup_dependent_build_environment
:linenos:
to set the ``QTDIR`` environment variable so that packages
that depend on a particular Qt installation will find it.
Another good example of how a dependency can influence
the build environment of dependents is the Python package:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/python/package.py
:pyobject: Python.setup_dependent_build_environment
:linenos:
In the method above it is ensured that any package that depends on Python
will have the ``PYTHONPATH``, ``PYTHONHOME`` and ``PATH`` environment
variables set appropriately before starting the installation. To make things
even simpler the ``python setup.py`` command is also inserted into the module
scope of dependents by overriding a third method called
:meth:`setup_dependent_package <spack.package_base.PackageBase.setup_dependent_package>`
:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/python/package.py
:pyobject: Python.setup_dependent_package
:linenos:
This allows most python packages to have a very simple install procedure,
like the following:
.. code-block:: python
def install(self, spec, prefix):
setup_py("install", "--prefix={0}".format(prefix))
Finally the Python package takes also care of the modifications to ``PYTHONPATH``
to allow dependencies to run correctly:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/python/package.py
:pyobject: Python.setup_dependent_run_environment
:linenos:
.. _packaging_conflicts:
@@ -2859,6 +2832,70 @@ variant(s) are selected. This may be accomplished with conditional
extends("python", when="+python")
...
.. _setup-environment:
--------------------------------------------
Runtime and build time environment variables
--------------------------------------------
Spack provides a few methods to help package authors set up the required environment variables for
their package. Environment variables typically depend on how the package is used: variables that
make sense during the build phase may not be needed at runtime, and vice versa. Further, sometimes
it makes sense to let a dependency set the environment variables for its dependents. To allow all
this, Spack provides four different methods that can be overridden in a package:
1. :meth:`setup_build_environment <spack.builder.Builder.setup_build_environment>`
2. :meth:`setup_run_environment <spack.package_base.PackageBase.setup_run_environment>`
3. :meth:`setup_dependent_build_environment <spack.builder.Builder.setup_dependent_build_environment>`
4. :meth:`setup_dependent_run_environment <spack.package_base.PackageBase.setup_dependent_run_environment>`
The Qt package, for instance, uses this call:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/qt/package.py
:pyobject: Qt.setup_dependent_build_environment
:linenos:
to set the ``QTDIR`` environment variable so that packages that depend on a particular Qt
installation will find it.
The following diagram will give you an idea when each of these methods is called in a build
context:
.. image:: images/setup_env.png
:align: center
Notice that ``setup_dependent_run_environment`` can be called multiple times, once for each
dependent package, whereas ``setup_run_environment`` is called only once for the package itself.
This means that the former should only be used if the environment variables depend on the dependent
package, whereas the latter should be used if the environment variables depend only on the package
itself.
--------------------------------
Setting package module variables
--------------------------------
Apart from modifying environment variables of the dependent package, you can also define Python
variables to be used by the dependent. This is done by implementing
:meth:`setup_dependent_package <spack.package_base.PackageBase.setup_dependent_package>`. An
example of this can be found in the ``Python`` package:
.. literalinclude:: _spack_root/var/spack/repos/builtin/packages/python/package.py
:pyobject: Python.setup_dependent_package
:linenos:
This allows Python packages to directly use these variables:
.. code-block:: python
def install(self, spec, prefix):
...
install("script.py", python_platlib)
.. note::
We recommend using ``setup_dependent_package`` sparingly, as it is not always clear where
global variables are coming from when editing a ``package.py`` file.
-----
Views
-----
@@ -2937,6 +2974,33 @@ The ``provides("mpi")`` call tells Spack that the ``mpich`` package
can be used to satisfy the dependency of any package that
``depends_on("mpi")``.
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Providing multiple virtuals simultaneously
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Packages can provide more than one virtual dependency. Sometimes, due to implementation details,
there are subsets of those virtuals that need to be provided together by the same package.
A well-known example is ``openblas``, which provides both the ``lapack`` and ``blas`` API in a single ``libopenblas``
library. A package that needs ``lapack`` and ``blas`` must either use ``openblas`` to provide both, or not use
``openblas`` at all. It cannot pick one or the other.
To express this constraint in a package, the two virtual dependencies must be listed in the same ``provides`` directive:
.. code-block:: python
provides('blas', 'lapack')
This makes it impossible to select ``openblas`` as a provider for one of the two
virtual dependencies and not for the other. If you try to, Spack will report an error:
.. code-block:: console
$ spack spec netlib-scalapack ^[virtuals=lapack] openblas ^[virtuals=blas] atlas
==> Error: concretization failed for the following reasons:
1. Package 'openblas' needs to provide both 'lapack' and 'blas' together, but provides only 'lapack'
^^^^^^^^^^^^^^^^^^^^
Versioned Interfaces
^^^^^^^^^^^^^^^^^^^^
@@ -3439,6 +3503,56 @@ is equivalent to:
Constraints from nested context managers are also combined together, but they are rarely
needed or recommended.
.. _default_args:
------------------------
Common default arguments
------------------------
Similarly, if directives have a common set of default arguments, you can
group them together in a ``with default_args()`` block:
.. code-block:: python
class PyExample(PythonPackage):
with default_args(type=("build", "run")):
depends_on("py-foo")
depends_on("py-foo@2:", when="@2:")
depends_on("py-bar")
depends_on("py-bz")
The above is short for:
.. code-block:: python
class PyExample(PythonPackage):
depends_on("py-foo", type=("build", "run"))
depends_on("py-foo@2:", when="@2:", type=("build", "run"))
depends_on("py-bar", type=("build", "run"))
depends_on("py-bz", type=("build", "run"))
.. note::
The ``with when()`` context manager is composable, while ``with default_args()``
merely overrides the default. For example:
.. code-block:: python
with default_args(when="+feature"):
depends_on("foo")
depends_on("bar")
depends_on("baz", when="+baz")
is equivalent to:
.. code-block:: python
depends_on("foo", when="+feature")
depends_on("bar", when="+feature")
depends_on("baz", when="+baz") # Note: not when="+feature+baz"
.. _install-method:
------------------
@@ -3501,7 +3615,7 @@ need to override methods like ``configure_args``:
def configure_args(self):
args = ["--enable-cxx"] + self.enable_or_disable("libs")
if "libs=static" in self.spec:
if self.spec.satisfies("libs=static"):
args.append("--with-pic")
return args
@@ -3635,7 +3749,8 @@ regardless of the build system. The arguments for the phase are:
The arguments ``spec`` and ``prefix`` are passed only for convenience, as they always
correspond to ``self.spec`` and ``self.spec.prefix`` respectively.
If the ``package.py`` encodes builders explicitly, the signature for a phase changes slightly:
If the ``package.py`` has build instructions in a separate
:ref:`builder class <multiple_build_systems>`, the signature for a phase changes slightly:
.. code-block:: python
@@ -3645,56 +3760,6 @@ If the ``package.py`` encodes builders explicitly, the signature for a phase cha
In this case the package is passed as the second argument, and ``self`` is the builder instance.
.. _multiple_build_systems:
^^^^^^^^^^^^^^^^^^^^^^
Multiple build systems
^^^^^^^^^^^^^^^^^^^^^^
There are cases where a software actively supports two build systems, or changes build systems
as it evolves, or needs different build systems on different platforms. Spack allows dealing with
these cases natively, if a recipe is written using builders explicitly.
For instance, software that supports two build systems unconditionally should derive from
both ``*Package`` base classes, and declare the possible use of multiple build systems using
a directive:
.. code-block:: python
class ArpackNg(CMakePackage, AutotoolsPackage):
build_system("cmake", "autotools", default="cmake")
In this case the software can be built with both ``autotools`` and ``cmake``. Since the package
supports multiple build systems, it is necessary to declare which one is the default. The ``package.py``
will likely contain some overriding of default builder methods:
.. code-block:: python
class CMakeBuilder(spack.build_systems.cmake.CMakeBuilder):
def cmake_args(self):
pass
class AutotoolsBuilder(spack.build_systems.autotools.AutotoolsBuilder):
def configure_args(self):
pass
In more complex cases it might happen that the build system changes according to certain conditions,
for instance across versions. That can be expressed with conditional variant values:
.. code-block:: python
class ArpackNg(CMakePackage, AutotoolsPackage):
build_system(
conditional("cmake", when="@0.64:"),
conditional("autotools", when="@:0.63"),
default="cmake",
)
In the example the directive impose a change from ``Autotools`` to ``CMake`` going
from ``v0.63`` to ``v0.64``.
^^^^^^^^^^^^^^^^^^
Mixin base classes
^^^^^^^^^^^^^^^^^^
@@ -3741,6 +3806,106 @@ for instance:
In the example above ``Cp2k`` inherits all the conflicts and variants that ``CudaPackage`` defines.
.. _multiple_build_systems:
----------------------
Multiple build systems
----------------------
There are cases where a package actively supports two build systems, or changes build systems
as it evolves, or needs different build systems on different platforms. Spack allows dealing with
these cases by splitting the build instructions into separate builder classes.
For instance, software that supports two build systems unconditionally should derive from
both ``*Package`` base classes, and declare the possible use of multiple build systems using
a directive:
.. code-block:: python
class Example(CMakePackage, AutotoolsPackage):
variant("my_feature", default=True)
build_system("cmake", "autotools", default="cmake")
In this case the software can be built with both ``autotools`` and ``cmake``. Since the package
supports multiple build systems, it is necessary to declare which one is the default.
Additional build instructions are split into separate builder classes:
.. code-block:: python
class CMakeBuilder(spack.build_systems.cmake.CMakeBuilder):
def cmake_args(self):
return [
self.define_from_variant("MY_FEATURE", "my_feature")
]
class AutotoolsBuilder(spack.build_systems.autotools.AutotoolsBuilder):
def configure_args(self):
return self.with_or_without("my-feature", variant="my_feature")
In this example, ``spack install example +feature build_sytem=cmake`` will
pick the ``CMakeBuilder`` and invoke ``cmake -DMY_FEATURE:BOOL=ON``.
Similarly, ``spack install example +feature build_system=autotools`` will pick
the ``AutotoolsBuilder`` and invoke ``./configure --with-my-feature``.
Dependencies are always specified in the package class. When some dependencies
depend on the choice of the build system, it is possible to use when conditions as
usual:
.. code-block:: python
class Example(CMakePackage, AutotoolsPackage):
build_system("cmake", "autotools", default="cmake")
# Runtime dependencies
depends_on("ncurses")
depends_on("libxml2")
# Lowerbounds for cmake only apply when using cmake as the build system
with when("build_system=cmake"):
depends_on("cmake@3.18:", when="@2.0:", type="build")
depends_on("cmake@3:", type="build")
# Specify extra build dependencies used only in the configure script
with when("build_system=autotools"):
depends_on("perl", type="build")
depends_on("pkgconfig", type="build")
Very often projects switch from one build system to another, or add support
for a new build system from a certain version, which means that the choice
of the build system typically depends on a version range. Those situations can
be handled by using conditional values in the ``build_system`` directive:
.. code-block:: python
class Example(CMakePackage, AutotoolsPackage):
build_system(
conditional("cmake", when="@0.64:"),
conditional("autotools", when="@:0.63"),
default="cmake",
)
In the example the directive impose a change from ``Autotools`` to ``CMake`` going
from ``v0.63`` to ``v0.64``.
The ``build_system`` can be used as an ordinary variant, which also means that it can
be used in ``depends_on`` statements. This can be useful when a package *requires* that
its dependency has a CMake config file, meaning that the dependent can only build when the
dependency is built with CMake, and not Autotools. In that case, you can force the choice
of the build system in the dependent:
.. code-block:: python
class Dependent(CMakePackage):
depends_on("example build_system=cmake")
.. _install-environment:
-----------------------
@@ -4313,7 +4478,7 @@ for supported features, for instance:
.. code-block:: python
if "avx512" in spec.target:
if spec.satisfies("target=avx512"):
args.append("--with-avx512")
The snippet above will append the ``--with-avx512`` item to a list of arguments only if the corresponding
@@ -6196,7 +6361,100 @@ follows:
"foo-package@{0}".format(version_str)
)
.. _package-lifecycle:
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Add detection tests to packages
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
To ensure that software is detected correctly for multiple configurations
and on different systems users can write a ``detection_test.yaml`` file and
put it in the package directory alongside the ``package.py`` file.
This YAML file contains enough information for Spack to mock an environment
and try to check if the detection logic yields the results that are expected.
As a general rule, attributes at the top-level of ``detection_test.yaml``
represent search mechanisms and they each map to a list of tests that should confirm
the validity of the package's detection logic.
The detection tests can be run with the following command:
.. code-block:: console
$ spack audit externals
Errors that have been detected are reported to screen.
""""""""""""""""""""""""""
Tests for PATH inspections
""""""""""""""""""""""""""
Detection tests insisting on ``PATH`` inspections are listed under
the ``paths`` attribute:
.. code-block:: yaml
paths:
- layout:
- executables:
- "bin/clang-3.9"
- "bin/clang++-3.9"
script: |
echo "clang version 3.9.1-19ubuntu1 (tags/RELEASE_391/rc2)"
echo "Target: x86_64-pc-linux-gnu"
echo "Thread model: posix"
echo "InstalledDir: /usr/bin"
results:
- spec: 'llvm@3.9.1 +clang~lld~lldb'
Each test is performed by first creating a temporary directory structure as
specified in the corresponding ``layout`` and by then running
package detection and checking that the outcome matches the expected
``results``. The exact details on how to specify both the ``layout`` and the
``results`` are reported in the table below:
.. list-table:: Test based on PATH inspections
:header-rows: 1
* - Option Name
- Description
- Allowed Values
- Required Field
* - ``layout``
- Specifies the filesystem tree used for the test
- List of objects
- Yes
* - ``layout:[0]:executables``
- Relative paths for the mock executables to be created
- List of strings
- Yes
* - ``layout:[0]:script``
- Mock logic for the executable
- Any valid shell script
- Yes
* - ``results``
- List of expected results
- List of objects (empty if no result is expected)
- Yes
* - ``results:[0]:spec``
- A spec that is expected from detection
- Any valid spec
- Yes
"""""""""""""""""""""""""""""""
Reuse tests from other packages
"""""""""""""""""""""""""""""""
When using a custom repository, it is possible to customize a package that already exists in ``builtin``
and reuse its external tests. To do so, just write a ``detection_tests.yaml`` alongside the customized
``package.py`` with an ``includes`` attribute. For instance the ``detection_tests.yaml`` for
``myrepo.llvm`` might look like:
.. code-block:: yaml
includes:
- "builtin.llvm"
This YAML file instructs Spack to run the detection tests defined in ``builtin.llvm`` in addition to
those locally defined in the file.
-----------------------------
Style guidelines for packages
@@ -6655,3 +6913,63 @@ To achieve backward compatibility with the single-class format Spack creates in
Overall the role of the adapter is to route access to attributes of methods first through the ``*Package``
hierarchy, and then back to the base class builder. This is schematically shown in the diagram above, where
the adapter role is to "emulate" a method resolution order like the one represented by the red arrows.
------------------------------
Specifying License Information
------------------------------
Most of the software in Spack is open source, and most open source software is released
under one or more `common open source licenses <https://opensource.org/licenses/>`_.
Specifying the license that a package is released under in a project's
`package.py` is good practice. To specify a license, find the `SPDX identifier
<https://spdx.org/licenses/>`_ for a project and then add it using the license
directive:
.. code-block:: python
license("<SPDX Identifier HERE>")
For example, the SPDX ID for the Apache Software License, version 2.0 is ``Apache-2.0``,
so you'd write:
.. code-block:: python
license("Apache-2.0")
Or, for a dual-licensed package like Spack, you would use an `SPDX Expression
<https://spdx.github.io/spdx-spec/v2-draft/SPDX-license-expressions/>`_ with both of its
licenses:
.. code-block:: python
license("Apache-2.0 OR MIT")
Note that specifying a license without a when clause makes it apply to all
versions and variants of the package, which might not actually be the case.
For example, a project might have switched licenses at some point or have
certain build configurations that include files that are licensed differently.
Spack itself used to be under the ``LGPL-2.1`` license, until it was relicensed
in version ``0.12`` in 2018.
You can specify when a ``license()`` directive applies using with a ``when=``
clause, just like other directives. For example, to specify that a specific
license identifier should only apply to versions up to ``0.11``, but another
license should apply for later versions, you could write:
.. code-block:: python
license("LGPL-2.1", when="@:0.11")
license("Apache-2.0 OR MIT", when="@0.12:")
Note that unlike for most other directives, the ``when=`` constraints in the
``license()`` directive can't intersect. Spack needs to be able to resolve
exactly one license identifier expression for any given version. To specify
*multiple* licenses, use SPDX expressions and operators as above. The operators
you probably care most about are:
* ``OR``: user chooses one license to adhere to; and
* ``AND``: user has to adhere to all the licenses.
You may also care about `license exceptions
<https://spdx.org/licenses/exceptions-index.html>`_ that use the ``WITH`` operator,
e.g. ``Apache-2.0 WITH LLVM-exception``.

View File

@@ -213,6 +213,16 @@ pipeline jobs.
``spack ci generate``
^^^^^^^^^^^^^^^^^^^^^
Throughout this documentation, references to the "mirror" mean the target
mirror which is checked for the presence of up-to-date specs, and where
any scheduled jobs should push built binary packages. In the past, this
defaulted to the mirror at index 0 in the mirror configs, and could be
overridden using the ``--buildcache-destination`` argument. Starting with
Spack 0.23, ``spack ci generate`` will require you to identify this mirror
by the name "buildcache-destination". While you can configure any number
of mirrors as sources for your pipelines, you will need to identify the
destination mirror by name.
Concretizes the specs in the active environment, stages them (as described in
:ref:`staging_algorithm`), and writes the resulting ``.gitlab-ci.yml`` to disk.
During concretization of the environment, ``spack ci generate`` also writes a

View File

@@ -4,7 +4,7 @@
SPDX-License-Identifier: (Apache-2.0 OR MIT)
=====================================
Using Spack to Replace Homebrew/Conda
Spack for Homebrew/Conda Users
=====================================
Spack is an incredibly powerful package manager, designed for supercomputers
@@ -191,18 +191,18 @@ The ``--fresh`` flag tells Spack to use the latest version of every package
where possible instead of trying to optimize for reuse of existing installed
packages.
The ``--force`` flag in addition tells Spack to overwrite its previous
concretization decisions, allowing you to choose a new version of Python.
If any of the new packages like Bash are already installed, ``spack install``
The ``--force`` flag in addition tells Spack to overwrite its previous
concretization decisions, allowing you to choose a new version of Python.
If any of the new packages like Bash are already installed, ``spack install``
won't re-install them, it will keep the symlinks in place.
-----------------------------------
Updating & Cleaning Up Old Packages
-----------------------------------
If you're looking to mimic the behavior of Homebrew, you may also want to
clean up out-of-date packages from your environment after an upgrade. To
upgrade your entire software stack within an environment and clean up old
If you're looking to mimic the behavior of Homebrew, you may also want to
clean up out-of-date packages from your environment after an upgrade. To
upgrade your entire software stack within an environment and clean up old
package versions, simply run the following commands:
.. code-block:: console
@@ -212,9 +212,9 @@ package versions, simply run the following commands:
$ spack concretize --fresh --force
$ spack install
$ spack gc
Running ``spack mark -i --all`` tells Spack to mark all of the existing
packages within an environment as "implicitly" installed. This tells
Running ``spack mark -i --all`` tells Spack to mark all of the existing
packages within an environment as "implicitly" installed. This tells
spack's garbage collection system that these packages should be cleaned up.
Don't worry however, this will not remove your entire environment.
@@ -223,8 +223,8 @@ a fresh concretization and will re-mark any packages that should remain
installed as "explicitly" installed.
**Note:** if you use multiple spack environments you should re-run ``spack install``
in each of your environments prior to running ``spack gc`` to prevent spack
from uninstalling any shared packages that are no longer required by the
in each of your environments prior to running ``spack gc`` to prevent spack
from uninstalling any shared packages that are no longer required by the
environment you just upgraded.
--------------

View File

@@ -2,12 +2,12 @@ sphinx==7.2.6
sphinxcontrib-programoutput==0.17
sphinx_design==0.5.0
sphinx-rtd-theme==1.3.0
python-levenshtein==0.21.1
python-levenshtein==0.23.0
docutils==0.18.1
pygments==2.16.1
urllib3==2.0.4
pytest==7.4.2
urllib3==2.0.7
pytest==7.4.3
isort==5.12.0
black==23.9.1
black==23.10.1
flake8==6.1.0
mypy==1.5.1
mypy==1.6.1

View File

@@ -1,9 +1,7 @@
Name, Supported Versions, Notes, Requirement Reason
Python, 3.6--3.11, , Interpreter for Spack
Python, 3.6--3.12, , Interpreter for Spack
C/C++ Compilers, , , Building software
make, , , Build software
patch, , , Build software
bash, , , Compiler wrappers
tar, , , Extract/create archives
gzip, , , Compress/Decompress archives
unzip, , , Compress/Decompress archives
1 Name Supported Versions Notes Requirement Reason
2 Python 3.6--3.11 3.6--3.12 Interpreter for Spack
3 C/C++ Compilers Building software
make Build software
4 patch Build software
bash Compiler wrappers
5 tar Extract/create archives
6 gzip Compress/Decompress archives
7 unzip Compress/Decompress archives

View File

@@ -18,7 +18,7 @@
* Homepage: https://pypi.python.org/pypi/archspec
* Usage: Labeling, comparison and detection of microarchitectures
* Version: 0.2.1 (commit df43a1834460bf94516136951c4729a3100603ec)
* Version: 0.2.2 (commit 1dc58a5776dd77e6fc6e4ba5626af5b1fb24996e)
astunparse
----------------

View File

@@ -1,2 +1,2 @@
"""Init file to avoid namespace packages"""
__version__ = "0.2.1"
__version__ = "0.2.2"

View File

@@ -2318,6 +2318,26 @@
]
}
},
"power10": {
"from": ["power9"],
"vendor": "IBM",
"generation": 10,
"features": [],
"compilers": {
"gcc": [
{
"versions": "11.1:",
"flags": "-mcpu={name} -mtune={name}"
}
],
"clang": [
{
"versions": "11.0:",
"flags": "-mcpu={name} -mtune={name}"
}
]
}
},
"ppc64le": {
"from": [],
"vendor": "generic",
@@ -2405,6 +2425,29 @@
]
}
},
"power10le": {
"from": ["power9le"],
"vendor": "IBM",
"generation": 10,
"features": [],
"compilers": {
"gcc": [
{
"name": "power10",
"versions": "11.1:",
"flags": "-mcpu={name} -mtune={name}"
}
],
"clang": [
{
"versions": "11.0:",
"family": "ppc64le",
"name": "power10",
"flags": "-mcpu={name} -mtune={name}"
}
]
}
},
"aarch64": {
"from": [],
"vendor": "generic",
@@ -2592,6 +2635,37 @@
]
}
},
"armv9.0a": {
"from": ["armv8.5a"],
"vendor": "generic",
"features": [],
"compilers": {
"gcc": [
{
"versions": "12:",
"flags": "-march=armv9-a -mtune=generic"
}
],
"clang": [
{
"versions": "14:",
"flags": "-march=armv9-a -mtune=generic"
}
],
"apple-clang": [
{
"versions": ":",
"flags": "-march=armv9-a -mtune=generic"
}
],
"arm": [
{
"versions": ":",
"flags": "-march=armv9-a -mtune=generic"
}
]
}
},
"thunderx2": {
"from": ["armv8.1a"],
"vendor": "Cavium",
@@ -2813,8 +2887,12 @@
],
"arm" : [
{
"versions": "20:",
"versions": "20:21.9",
"flags" : "-march=armv8.2-a+fp16+rcpc+dotprod+crypto"
},
{
"versions": "22:",
"flags" : "-mcpu=neoverse-n1"
}
],
"nvhpc" : [
@@ -2942,7 +3020,7 @@
},
{
"versions": "22:",
"flags" : "-march=armv8.4-a+sve+ssbs+fp16+bf16+crypto+i8mm+rng"
"flags" : "-mcpu=neoverse-v1"
}
],
"nvhpc" : [
@@ -2954,6 +3032,126 @@
]
}
},
"neoverse_v2": {
"from": ["neoverse_n1", "armv9.0a"],
"vendor": "ARM",
"features": [
"fp",
"asimd",
"evtstrm",
"aes",
"pmull",
"sha1",
"sha2",
"crc32",
"atomics",
"fphp",
"asimdhp",
"cpuid",
"asimdrdm",
"jscvt",
"fcma",
"lrcpc",
"dcpop",
"sha3",
"sm3",
"sm4",
"asimddp",
"sha512",
"sve",
"asimdfhm",
"dit",
"uscat",
"ilrcpc",
"flagm",
"ssbs",
"sb",
"paca",
"pacg",
"dcpodp",
"sve2",
"sveaes",
"svepmull",
"svebitperm",
"svesha3",
"svesm4",
"flagm2",
"frint",
"svei8mm",
"svebf16",
"i8mm",
"bf16",
"dgh",
"bti"
],
"compilers" : {
"gcc": [
{
"versions": "4.8:5.99",
"flags": "-march=armv8-a"
},
{
"versions": "6:6.99",
"flags" : "-march=armv8.1-a"
},
{
"versions": "7.0:7.99",
"flags" : "-march=armv8.2-a -mtune=cortex-a72"
},
{
"versions": "8.0:8.99",
"flags" : "-march=armv8.4-a+sve -mtune=cortex-a72"
},
{
"versions": "9.0:9.99",
"flags" : "-march=armv8.5-a+sve -mtune=cortex-a76"
},
{
"versions": "10.0:11.99",
"flags" : "-march=armv8.5-a+sve+sve2+i8mm+bf16 -mtune=cortex-a77"
},
{
"versions": "12.0:12.99",
"flags" : "-march=armv9-a+i8mm+bf16 -mtune=cortex-a710"
},
{
"versions": "13.0:",
"flags" : "-mcpu=neoverse-v2"
}
],
"clang" : [
{
"versions": "9.0:10.99",
"flags" : "-march=armv8.5-a+sve"
},
{
"versions": "11.0:13.99",
"flags" : "-march=armv8.5-a+sve+sve2+i8mm+bf16"
},
{
"versions": "14.0:15.99",
"flags" : "-march=armv9-a+i8mm+bf16"
},
{
"versions": "16.0:",
"flags" : "-mcpu=neoverse-v2"
}
],
"arm" : [
{
"versions": "23.04.0:",
"flags" : "-mcpu=neoverse-v2"
}
],
"nvhpc" : [
{
"versions": "23.3:",
"name": "neoverse-v2",
"flags": "-tp {name}"
}
]
}
},
"m1": {
"from": ["armv8.4a"],
"vendor": "Apple",

105
lib/spack/llnl/path.py Normal file
View File

@@ -0,0 +1,105 @@
# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
"""Path primitives that just require Python standard library."""
import functools
import sys
from typing import List, Optional
from urllib.parse import urlparse
class Path:
"""Enum to identify the path-style."""
unix: int = 0
windows: int = 1
platform_path: int = windows if sys.platform == "win32" else unix
def format_os_path(path: str, mode: int = Path.unix) -> str:
"""Formats the input path to use consistent, platform specific separators.
Absolute paths are converted between drive letters and a prepended '/' as per platform
requirement.
Parameters:
path: the path to be normalized, must be a string or expose the replace method.
mode: the path file separator style to normalize the passed path to.
Default is unix style, i.e. '/'
"""
if not path:
return path
if mode == Path.windows:
path = path.replace("/", "\\")
else:
path = path.replace("\\", "/")
return path
def convert_to_posix_path(path: str) -> str:
"""Converts the input path to POSIX style."""
return format_os_path(path, mode=Path.unix)
def convert_to_windows_path(path: str) -> str:
"""Converts the input path to Windows style."""
return format_os_path(path, mode=Path.windows)
def convert_to_platform_path(path: str) -> str:
"""Converts the input path to the current platform's native style."""
return format_os_path(path, mode=Path.platform_path)
def path_to_os_path(*parameters: str) -> List[str]:
"""Takes an arbitrary number of positional parameters, converts each argument of type
string to use a normalized filepath separator, and returns a list of all values.
"""
def _is_url(path_or_url: str) -> bool:
if "\\" in path_or_url:
return False
url_tuple = urlparse(path_or_url)
return bool(url_tuple.scheme) and len(url_tuple.scheme) > 1
result = []
for item in parameters:
if isinstance(item, str) and not _is_url(item):
item = convert_to_platform_path(item)
result.append(item)
return result
def system_path_filter(_func=None, arg_slice: Optional[slice] = None):
"""Filters function arguments to account for platform path separators.
Optional slicing range can be specified to select specific arguments
This decorator takes all (or a slice) of a method's positional arguments
and normalizes usage of filepath separators on a per platform basis.
Note: `**kwargs`, urls, and any type that is not a string are ignored
so in such cases where path normalization is required, that should be
handled by calling path_to_os_path directly as needed.
Parameters:
arg_slice: a slice object specifying the slice of arguments
in the decorated method over which filepath separators are
normalized
"""
def holder_func(func):
@functools.wraps(func)
def path_filter_caller(*args, **kwargs):
args = list(args)
if arg_slice:
args[arg_slice] = path_to_os_path(*args[arg_slice])
else:
args = path_to_os_path(*args)
return func(*args, **kwargs)
return path_filter_caller
if _func:
return holder_func(_func)
return holder_func

67
lib/spack/llnl/string.py Normal file
View File

@@ -0,0 +1,67 @@
# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
"""String manipulation functions that do not have other dependencies than Python
standard library
"""
from typing import List, Optional
def comma_list(sequence: List[str], article: str = "") -> str:
if type(sequence) is not list:
sequence = list(sequence)
if not sequence:
return ""
if len(sequence) == 1:
return sequence[0]
out = ", ".join(str(s) for s in sequence[:-1])
if len(sequence) != 2:
out += "," # oxford comma
out += " "
if article:
out += article + " "
out += str(sequence[-1])
return out
def comma_or(sequence: List[str]) -> str:
"""Return a string with all the elements of the input joined by comma, but the last
one (which is joined by 'or').
"""
return comma_list(sequence, "or")
def comma_and(sequence: List[str]) -> str:
"""Return a string with all the elements of the input joined by comma, but the last
one (which is joined by 'and').
"""
return comma_list(sequence, "and")
def quote(sequence: List[str], q: str = "'") -> List[str]:
"""Quotes each item in the input list with the quote character passed as second argument."""
return [f"{q}{e}{q}" for e in sequence]
def plural(n: int, singular: str, plural: Optional[str] = None, show_n: bool = True) -> str:
"""Pluralize <singular> word by adding an s if n != 1.
Arguments:
n: number of things there are
singular: singular form of word
plural: optional plural form, for when it's not just singular + 's'
show_n: whether to include n in the result string (default True)
Returns:
"1 thing" if n == 1 or "n things" if n != 1
"""
number = f"{n} " if show_n else ""
if n == 1:
return f"{number}{singular}"
elif plural is not None:
return f"{number}{plural}"
else:
return f"{number}{singular}s"

View File

@@ -28,7 +28,8 @@
from llnl.util.symlink import islink, readlink, resolve_link_target_relative_to_the_link, symlink
from spack.util.executable import Executable, which
from spack.util.path import path_to_os_path, system_path_filter
from ..path import path_to_os_path, system_path_filter
if sys.platform != "win32":
import grp
@@ -155,6 +156,37 @@ def lookup(name):
shutil.copystat = copystat
def polite_path(components: Iterable[str]):
"""
Given a list of strings which are intended to be path components,
generate a path, and format each component to avoid generating extra
path entries.
For example all "/", "\", and ":" characters will be replaced with
"_". Other characters like "=" will also be replaced.
"""
return os.path.join(*[polite_filename(x) for x in components])
@memoized
def _polite_antipattern():
# A regex of all the characters we don't want in a filename
return re.compile(r"[^A-Za-z0-9_.-]")
def polite_filename(filename: str) -> str:
"""
Replace generally problematic filename characters with underscores.
This differs from sanitize_filename in that it is more aggressive in
changing characters in the name. For example it removes "=" which can
confuse path parsing in external tools.
"""
# This character set applies for both Windows and Linux. It does not
# account for reserved filenames in Windows.
return _polite_antipattern().sub("_", filename)
def getuid():
if sys.platform == "win32":
import ctypes
@@ -336,8 +368,7 @@ def groupid_to_group(x):
if string:
regex = re.escape(regex)
filenames = path_to_os_path(*filenames)
for filename in filenames:
for filename in path_to_os_path(*filenames):
msg = 'FILTER FILE: {0} [replacing "{1}"]'
tty.debug(msg.format(filename, regex))

View File

@@ -14,7 +14,7 @@
from llnl.util import lang, tty
import spack.util.string
from ..string import plural
if sys.platform != "win32":
import fcntl
@@ -169,7 +169,7 @@ def _attempts_str(wait_time, nattempts):
if nattempts <= 1:
return ""
attempts = spack.util.string.plural(nattempts, "attempt")
attempts = plural(nattempts, "attempt")
return " after {} and {}".format(lang.pretty_seconds(wait_time), attempts)

View File

@@ -11,8 +11,7 @@
from llnl.util import lang, tty
from spack.error import SpackError
from spack.util.path import system_path_filter
from ..path import system_path_filter
if sys.platform == "win32":
from win32file import CreateHardLink
@@ -338,7 +337,7 @@ def resolve_link_target_relative_to_the_link(link):
return os.path.join(link_dir, target)
class SymlinkError(SpackError):
class SymlinkError(RuntimeError):
"""Exception class for errors raised while creating symlinks,
junctions and hard links
"""

View File

@@ -211,6 +211,7 @@ def info(message, *args, **kwargs):
stream.write(line + "\n")
else:
stream.write(indent + _output_filter(str(arg)) + "\n")
stream.flush()
def verbose(message, *args, **kwargs):

View File

@@ -8,8 +8,8 @@
from llnl.util.lang import memoized
import spack.spec
import spack.version
from spack.compilers.clang import Clang
from spack.spec import CompilerSpec
from spack.util.executable import Executable, ProcessError
@@ -17,7 +17,9 @@ class ABI:
"""This class provides methods to test ABI compatibility between specs.
The current implementation is rather rough and could be improved."""
def architecture_compatible(self, target, constraint):
def architecture_compatible(
self, target: spack.spec.Spec, constraint: spack.spec.Spec
) -> bool:
"""Return true if architecture of target spec is ABI compatible
to the architecture of constraint spec. If either the target
or constraint specs have no architecture, target is also defined
@@ -34,7 +36,7 @@ def _gcc_get_libstdcxx_version(self, version):
a compiler's libstdc++ or libgcc_s"""
from spack.build_environment import dso_suffix
spec = CompilerSpec("gcc", version)
spec = spack.spec.CompilerSpec("gcc", version)
compilers = spack.compilers.compilers_for_spec(spec)
if not compilers:
return None
@@ -77,16 +79,20 @@ def _gcc_compiler_compare(self, pversion, cversion):
return False
return plib == clib
def _intel_compiler_compare(self, pversion, cversion):
def _intel_compiler_compare(
self, pversion: spack.version.ClosedOpenRange, cversion: spack.version.ClosedOpenRange
) -> bool:
"""Returns true iff the intel version pversion and cversion
are ABI compatible"""
# Test major and minor versions. Ignore build version.
if len(pversion.version) < 2 or len(cversion.version) < 2:
return False
return pversion.version[:2] == cversion.version[:2]
pv = pversion.lo
cv = cversion.lo
return pv.up_to(2) == cv.up_to(2)
def compiler_compatible(self, parent, child, **kwargs):
def compiler_compatible(
self, parent: spack.spec.Spec, child: spack.spec.Spec, loose: bool = False
) -> bool:
"""Return true if compilers for parent and child are ABI compatible."""
if not parent.compiler or not child.compiler:
return True
@@ -95,7 +101,7 @@ def compiler_compatible(self, parent, child, **kwargs):
# Different compiler families are assumed ABI incompatible
return False
if kwargs.get("loose", False):
if loose:
return True
# TODO: Can we move the specialized ABI matching stuff
@@ -116,9 +122,10 @@ def compiler_compatible(self, parent, child, **kwargs):
return True
return False
def compatible(self, target, constraint, **kwargs):
def compatible(
self, target: spack.spec.Spec, constraint: spack.spec.Spec, loose: bool = False
) -> bool:
"""Returns true if target spec is ABI compatible to constraint spec"""
loosematch = kwargs.get("loose", False)
return self.architecture_compatible(target, constraint) and self.compiler_compatible(
target, constraint, loose=loosematch
target, constraint, loose=loose
)

View File

@@ -38,10 +38,13 @@ def _search_duplicate_compilers(error_cls):
import ast
import collections
import collections.abc
import glob
import inspect
import itertools
import pathlib
import pickle
import re
import warnings
from urllib.request import urlopen
import llnl.util.lang
@@ -304,10 +307,17 @@ def _check_build_test_callbacks(pkgs, error_cls):
@package_directives
def _check_patch_urls(pkgs, error_cls):
"""Ensure that patches fetched from GitHub have stable sha256 hashes."""
"""Ensure that patches fetched from GitHub and GitLab have stable sha256
hashes."""
github_patch_url_re = (
r"^https?://(?:patch-diff\.)?github(?:usercontent)?\.com/"
".+/.+/(?:commit|pull)/[a-fA-F0-9]*.(?:patch|diff)"
r".+/.+/(?:commit|pull)/[a-fA-F0-9]+\.(?:patch|diff)"
)
# Only .diff URLs have stable/full hashes:
# https://forum.gitlab.com/t/patches-with-full-index/29313
gitlab_patch_url_re = (
r"^https?://(?:.+)?gitlab(?:.+)/"
r".+/.+/-/(?:commit|merge_requests)/[a-fA-F0-9]+\.(?:patch|diff)"
)
errors = []
@@ -318,19 +328,27 @@ def _check_patch_urls(pkgs, error_cls):
if not isinstance(patch, spack.patch.UrlPatch):
continue
if not re.match(github_patch_url_re, patch.url):
continue
full_index_arg = "?full_index=1"
if not patch.url.endswith(full_index_arg):
errors.append(
error_cls(
"patch URL in package {0} must end with {1}".format(
pkg_cls.name, full_index_arg
),
[patch.url],
if re.match(github_patch_url_re, patch.url):
full_index_arg = "?full_index=1"
if not patch.url.endswith(full_index_arg):
errors.append(
error_cls(
"patch URL in package {0} must end with {1}".format(
pkg_cls.name, full_index_arg
),
[patch.url],
)
)
elif re.match(gitlab_patch_url_re, patch.url):
if not patch.url.endswith(".diff"):
errors.append(
error_cls(
"patch URL in package {0} must end with .diff".format(
pkg_cls.name
),
[patch.url],
)
)
)
return errors
@@ -798,3 +816,76 @@ def _analyze_variants_in_directive(pkg, constraint, directive, error_cls):
errors.append(err)
return errors
#: Sanity checks on package directives
external_detection = AuditClass(
group="externals",
tag="PKG-EXTERNALS",
description="Sanity checks for external software detection",
kwargs=("pkgs",),
)
def packages_with_detection_tests():
"""Return the list of packages with a corresponding detection_test.yaml file."""
import spack.config
import spack.util.path
to_be_tested = []
for current_repo in spack.repo.PATH.repos:
namespace = current_repo.namespace
packages_dir = pathlib.PurePath(current_repo.packages_path)
pattern = packages_dir / "**" / "detection_test.yaml"
pkgs_with_tests = [
f"{namespace}.{str(pathlib.PurePath(x).parent.name)}" for x in glob.glob(str(pattern))
]
to_be_tested.extend(pkgs_with_tests)
return to_be_tested
@external_detection
def _test_detection_by_executable(pkgs, error_cls):
"""Test drive external detection for packages"""
import spack.detection
errors = []
# Filter the packages and retain only the ones with detection tests
pkgs_with_tests = packages_with_detection_tests()
selected_pkgs = []
for current_package in pkgs_with_tests:
_, unqualified_name = spack.repo.partition_package_name(current_package)
# Check for both unqualified name and qualified name
if unqualified_name in pkgs or current_package in pkgs:
selected_pkgs.append(current_package)
selected_pkgs.sort()
if not selected_pkgs:
summary = "No detection test to run"
details = [f' "{p}" has no detection test' for p in pkgs]
warnings.warn("\n".join([summary] + details))
return errors
for pkg_name in selected_pkgs:
for idx, test_runner in enumerate(
spack.detection.detection_tests(pkg_name, spack.repo.PATH)
):
specs = test_runner.execute()
expected_specs = test_runner.expected_specs
not_detected = set(expected_specs) - set(specs)
if not_detected:
summary = pkg_name + ": cannot detect some specs"
details = [f'"{s}" was not detected [test_id={idx}]' for s in sorted(not_detected)]
errors.append(error_cls(summary=summary, details=details))
not_expected = set(specs) - set(expected_specs)
if not_expected:
summary = pkg_name + ": detected unexpected specs"
msg = '"{0}" was detected, but was not expected [test_id={1}]'
details = [msg.format(s, idx) for s in sorted(not_expected)]
errors.append(error_cls(summary=summary, details=details))
return errors

View File

@@ -5,11 +5,13 @@
import codecs
import collections
import errno
import hashlib
import io
import itertools
import json
import os
import pathlib
import re
import shutil
import sys
@@ -23,7 +25,7 @@
import warnings
from contextlib import closing, contextmanager
from gzip import GzipFile
from typing import List, NamedTuple, Optional, Union
from typing import Dict, List, NamedTuple, Optional, Set, Tuple
from urllib.error import HTTPError, URLError
import llnl.util.filesystem as fsys
@@ -31,6 +33,7 @@
import llnl.util.tty as tty
from llnl.util.filesystem import BaseDirectoryVisitor, mkdirp, visit_directory_tree
import spack.caches
import spack.cmd
import spack.config as config
import spack.database as spack_db
@@ -38,6 +41,9 @@
import spack.hooks
import spack.hooks.sbang
import spack.mirror
import spack.oci.image
import spack.oci.oci
import spack.oci.opener
import spack.platforms
import spack.relocate as relocate
import spack.repo
@@ -47,6 +53,7 @@
import spack.util.crypto
import spack.util.file_cache as file_cache
import spack.util.gpg
import spack.util.path
import spack.util.spack_json as sjson
import spack.util.spack_yaml as syaml
import spack.util.timer as timer
@@ -124,25 +131,25 @@ class BinaryCacheIndex:
mean we should have paid the price to update the cache earlier?
"""
def __init__(self, cache_root):
self._index_cache_root = cache_root
def __init__(self, cache_root: Optional[str] = None):
self._index_cache_root: str = cache_root or binary_index_location()
# the key associated with the serialized _local_index_cache
self._index_contents_key = "contents.json"
# a FileCache instance storing copies of remote binary cache indices
self._index_file_cache = None
self._index_file_cache: Optional[file_cache.FileCache] = None
# stores a map of mirror URL to index hash and cache key (index path)
self._local_index_cache = None
self._local_index_cache: Optional[dict] = None
# hashes of remote indices already ingested into the concrete spec
# cache (_mirrors_for_spec)
self._specs_already_associated = set()
self._specs_already_associated: Set[str] = set()
# mapping from mirror urls to the time.time() of the last index fetch and a bool indicating
# whether the fetch succeeded or not.
self._last_fetch_times = {}
self._last_fetch_times: Dict[str, float] = {}
# _mirrors_for_spec is a dictionary mapping DAG hashes to lists of
# entries indicating mirrors where that concrete spec can be found.
@@ -152,7 +159,7 @@ def __init__(self, cache_root):
# - the concrete spec itself, keyed by ``spec`` (including the
# full hash, since the dag hash may match but we want to
# use the updated source if available)
self._mirrors_for_spec = {}
self._mirrors_for_spec: Dict[str, dict] = {}
def _init_local_index_cache(self):
if not self._index_file_cache:
@@ -216,11 +223,11 @@ def _associate_built_specs_with_mirror(self, cache_key, mirror_url):
with self._index_file_cache.read_transaction(cache_key):
db._read_from_file(cache_path)
except spack_db.InvalidDatabaseVersionError as e:
msg = (
tty.warn(
f"you need a newer Spack version to read the buildcache index for the "
f"following mirror: '{mirror_url}'. {e.database_version_message}"
)
raise BuildcacheIndexError(msg) from e
return
spec_list = db.query_local(installed=False, in_buildcache=True)
@@ -471,14 +478,18 @@ def _fetch_and_cache_index(self, mirror_url, cache_entry={}):
FetchIndexError
"""
# TODO: get rid of this request, handle 404 better
if not web_util.url_exists(
scheme = urllib.parse.urlparse(mirror_url).scheme
if scheme != "oci" and not web_util.url_exists(
url_util.join(mirror_url, _build_cache_relative_path, "index.json")
):
return False
etag = cache_entry.get("etag", None)
if etag:
fetcher = EtagIndexFetcher(mirror_url, etag)
if scheme == "oci":
# TODO: Actually etag and OCI are not mutually exclusive...
fetcher = OCIIndexFetcher(mirror_url, cache_entry.get("index_hash", None))
elif cache_entry.get("etag"):
fetcher = EtagIndexFetcher(mirror_url, cache_entry["etag"])
else:
fetcher = DefaultIndexFetcher(
mirror_url, local_hash=cache_entry.get("index_hash", None)
@@ -519,15 +530,8 @@ def binary_index_location():
return spack.util.path.canonicalize_path(cache_root)
def _binary_index():
"""Get the singleton store instance."""
return BinaryCacheIndex(binary_index_location())
#: Singleton binary_index instance
binary_index: Union[BinaryCacheIndex, llnl.util.lang.Singleton] = llnl.util.lang.Singleton(
_binary_index
)
#: Default binary cache index instance
BINARY_INDEX: BinaryCacheIndex = llnl.util.lang.Singleton(BinaryCacheIndex) # type: ignore
class NoOverwriteException(spack.error.SpackError):
@@ -622,22 +626,14 @@ def build_cache_prefix(prefix):
def buildinfo_file_name(prefix):
"""
Filename of the binary package meta-data file
"""
name = os.path.join(prefix, ".spack/binary_distribution")
return name
"""Filename of the binary package meta-data file"""
return os.path.join(prefix, ".spack", "binary_distribution")
def read_buildinfo_file(prefix):
"""
Read buildinfo file
"""
filename = buildinfo_file_name(prefix)
with open(filename, "r") as inputfile:
content = inputfile.read()
buildinfo = syaml.load(content)
return buildinfo
"""Read buildinfo file"""
with open(buildinfo_file_name(prefix), "r") as f:
return syaml.load(f)
class BuildManifestVisitor(BaseDirectoryVisitor):
@@ -647,8 +643,7 @@ class BuildManifestVisitor(BaseDirectoryVisitor):
directories."""
def __init__(self):
# Save unique identifiers of files to avoid
# relocating hardlink files for each path.
# Save unique identifiers of hardlinks to avoid relocating them multiple times
self.visited = set()
# Lists of files we will check
@@ -657,6 +652,8 @@ def __init__(self):
def seen_before(self, root, rel_path):
stat_result = os.lstat(os.path.join(root, rel_path))
if stat_result.st_nlink == 1:
return False
identifier = (stat_result.st_dev, stat_result.st_ino)
if identifier in self.visited:
return True
@@ -797,11 +794,7 @@ def tarball_directory_name(spec):
Return name of the tarball directory according to the convention
<os>-<architecture>/<compiler>/<package>-<version>/
"""
return os.path.join(
str(spec.architecture),
f"{spec.compiler.name}-{spec.compiler.version}",
f"{spec.name}-{spec.version}",
)
return spec.format_path("{architecture}/{compiler.name}-{compiler.version}/{name}-{version}")
def tarball_name(spec, ext):
@@ -809,10 +802,10 @@ def tarball_name(spec, ext):
Return the name of the tarfile according to the convention
<os>-<architecture>-<package>-<dag_hash><ext>
"""
return (
f"{spec.architecture}-{spec.compiler.name}-{spec.compiler.version}-"
f"{spec.name}-{spec.version}-{spec.dag_hash()}{ext}"
spec_formatted = spec.format_path(
"{architecture}-{compiler.name}-{compiler.version}-{name}-{version}-{hash}"
)
return f"{spec_formatted}{ext}"
def tarball_path_name(spec, ext):
@@ -823,18 +816,6 @@ def tarball_path_name(spec, ext):
return os.path.join(tarball_directory_name(spec), tarball_name(spec, ext))
def checksum_tarball(file):
# calculate sha256 hash of tar file
block_size = 65536
hasher = hashlib.sha256()
with open(file, "rb") as tfile:
buf = tfile.read(block_size)
while len(buf) > 0:
hasher.update(buf)
buf = tfile.read(block_size)
return hasher.hexdigest()
def select_signing_key(key=None):
if key is None:
keys = spack.util.gpg.signing_keys()
@@ -913,7 +894,7 @@ def _read_specs_and_push_index(file_list, read_method, cache_prefix, db, temp_di
index_json_path,
url_util.join(cache_prefix, "index.json"),
keep_original=False,
extra_args={"ContentType": "application/json"},
extra_args={"ContentType": "application/json", "CacheControl": "no-cache"},
)
# Push the hash
@@ -921,7 +902,7 @@ def _read_specs_and_push_index(file_list, read_method, cache_prefix, db, temp_di
index_hash_path,
url_util.join(cache_prefix, "index.json.hash"),
keep_original=False,
extra_args={"ContentType": "text/plain"},
extra_args={"ContentType": "text/plain", "CacheControl": "no-cache"},
)
@@ -1151,63 +1132,190 @@ def gzip_compressed_tarfile(path):
# compresslevel=6 gzip default: llvm takes 4mins, roughly 2.1GB
# compresslevel=9 python default: llvm takes 12mins, roughly 2.1GB
# So we follow gzip.
with open(path, "wb") as fileobj, closing(
GzipFile(filename="", mode="wb", compresslevel=6, mtime=0, fileobj=fileobj)
) as gzip_file, tarfile.TarFile(name="", mode="w", fileobj=gzip_file) as tar:
yield tar
with open(path, "wb") as f, ChecksumWriter(f) as inner_checksum, closing(
GzipFile(filename="", mode="wb", compresslevel=6, mtime=0, fileobj=inner_checksum)
) as gzip_file, ChecksumWriter(gzip_file) as outer_checksum, tarfile.TarFile(
name="", mode="w", fileobj=outer_checksum
) as tar:
yield tar, inner_checksum, outer_checksum
def deterministic_tarinfo(tarinfo: tarfile.TarInfo):
# We only add files, symlinks, hardlinks, and directories
# No character devices, block devices and FIFOs should ever enter a tarball.
if tarinfo.isdev():
return None
# For distribution, it makes no sense to user/group data; since (a) they don't exist
# on other machines, and (b) they lead to surprises as `tar x` run as root will change
# ownership if it can. We want to extract as the current user. By setting owner to root,
# root will extract as root, and non-privileged user will extract as themselves.
tarinfo.uid = 0
tarinfo.gid = 0
tarinfo.uname = ""
tarinfo.gname = ""
# Reset mtime to epoch time, our prefixes are not truly immutable, so files may get
# touched; as long as the content does not change, this ensures we get stable tarballs.
tarinfo.mtime = 0
# Normalize mode
if tarinfo.isfile() or tarinfo.islnk():
# If user can execute, use 0o755; else 0o644
# This is to avoid potentially unsafe world writable & exeutable files that may get
# extracted when Python or tar is run with privileges
tarinfo.mode = 0o644 if tarinfo.mode & 0o100 == 0 else 0o755
else: # symbolic link and directories
tarinfo.mode = 0o755
return tarinfo
def _tarinfo_name(absolute_path: str, *, _path=pathlib.PurePath) -> str:
"""Compute tarfile entry name as the relative path from the (system) root."""
return _path(*_path(absolute_path).parts[1:]).as_posix()
def tar_add_metadata(tar: tarfile.TarFile, path: str, data: dict):
# Serialize buildinfo for the tarball
bstring = syaml.dump(data, default_flow_style=True).encode("utf-8")
tarinfo = tarfile.TarInfo(name=path)
tarinfo.size = len(bstring)
tar.addfile(deterministic_tarinfo(tarinfo), io.BytesIO(bstring))
def tarfile_of_spec_prefix(tar: tarfile.TarFile, prefix: str) -> None:
"""Create a tarfile of an install prefix of a spec. Skips existing buildinfo file.
Only adds regular files, symlinks and dirs. Skips devices, fifos. Preserves hardlinks.
Normalizes permissions like git. Tar entries are added in depth-first pre-order, with
dir entries partitioned by file | dir, and sorted alphabetically, for reproducibility.
Partitioning ensures only one dir is in memory at a time, and sorting improves compression.
Args:
tar: tarfile object to add files to
prefix: absolute install prefix of spec"""
if not os.path.isabs(prefix) or not os.path.isdir(prefix):
raise ValueError(f"prefix '{prefix}' must be an absolute path to a directory")
hardlink_to_tarinfo_name: Dict[Tuple[int, int], str] = dict()
stat_key = lambda stat: (stat.st_dev, stat.st_ino)
try: # skip buildinfo file if it exists
files_to_skip = [stat_key(os.lstat(buildinfo_file_name(prefix)))]
except OSError:
files_to_skip = []
dir_stack = [prefix]
while dir_stack:
dir = dir_stack.pop()
# Add the dir before its contents
dir_info = tarfile.TarInfo(_tarinfo_name(dir))
dir_info.type = tarfile.DIRTYPE
dir_info.mode = 0o755
tar.addfile(dir_info)
# Sort by name: reproducible & improves compression
with os.scandir(dir) as it:
entries = sorted(it, key=lambda entry: entry.name)
new_dirs = []
for entry in entries:
if entry.is_dir(follow_symlinks=False):
new_dirs.append(entry.path)
continue
file_info = tarfile.TarInfo(_tarinfo_name(entry.path))
s = entry.stat(follow_symlinks=False)
# Skip existing binary distribution files.
id = stat_key(s)
if id in files_to_skip:
continue
# Normalize the mode
file_info.mode = 0o644 if s.st_mode & 0o100 == 0 else 0o755
if entry.is_symlink():
file_info.type = tarfile.SYMTYPE
file_info.linkname = os.readlink(entry.path)
tar.addfile(file_info)
elif entry.is_file(follow_symlinks=False):
# Deduplicate hardlinks
if s.st_nlink > 1:
if id in hardlink_to_tarinfo_name:
file_info.type = tarfile.LNKTYPE
file_info.linkname = hardlink_to_tarinfo_name[id]
tar.addfile(file_info)
continue
hardlink_to_tarinfo_name[id] = file_info.name
# If file not yet seen, copy it.
file_info.type = tarfile.REGTYPE
file_info.size = s.st_size
with open(entry.path, "rb") as f:
tar.addfile(file_info, f)
dir_stack.extend(reversed(new_dirs)) # we pop, so reverse to stay alphabetical
def deterministic_tarinfo_without_buildinfo(tarinfo: tarfile.TarInfo):
"""Skip buildinfo file when creating a tarball, and normalize other tarinfo fields."""
if tarinfo.name.endswith("/.spack/binary_distribution"):
return None
class ChecksumWriter(io.BufferedIOBase):
"""Checksum writer computes a checksum while writing to a file."""
return deterministic_tarinfo(tarinfo)
myfileobj = None
def __init__(self, fileobj, algorithm=hashlib.sha256):
self.fileobj = fileobj
self.hasher = algorithm()
self.length = 0
def hexdigest(self):
return self.hasher.hexdigest()
def write(self, data):
if isinstance(data, (bytes, bytearray)):
length = len(data)
else:
data = memoryview(data)
length = data.nbytes
if length > 0:
self.fileobj.write(data)
self.hasher.update(data)
self.length += length
return length
def read(self, size=-1):
raise OSError(errno.EBADF, "read() on write-only object")
def read1(self, size=-1):
raise OSError(errno.EBADF, "read1() on write-only object")
def peek(self, n):
raise OSError(errno.EBADF, "peek() on write-only object")
@property
def closed(self):
return self.fileobj is None
def close(self):
fileobj = self.fileobj
if fileobj is None:
return
self.fileobj.close()
self.fileobj = None
def flush(self):
self.fileobj.flush()
def fileno(self):
return self.fileobj.fileno()
def rewind(self):
raise OSError("Can't rewind while computing checksum")
def readable(self):
return False
def writable(self):
return True
def seekable(self):
return True
def tell(self):
return self.fileobj.tell()
def seek(self, offset, whence=io.SEEK_SET):
# In principle forward seek is possible with b"0" padding,
# but this is not implemented.
if offset == 0 and whence == io.SEEK_CUR:
return
raise OSError("Can't seek while computing checksum")
def readline(self, size=-1):
raise OSError(errno.EBADF, "readline() on write-only object")
def _do_create_tarball(tarfile_path: str, binaries_dir: str, pkg_dir: str, buildinfo: dict):
with gzip_compressed_tarfile(tarfile_path) as tar:
tar.add(name=binaries_dir, arcname=pkg_dir, filter=deterministic_tarinfo_without_buildinfo)
tar_add_metadata(tar, buildinfo_file_name(pkg_dir), buildinfo)
def _do_create_tarball(tarfile_path: str, binaries_dir: str, buildinfo: dict):
with gzip_compressed_tarfile(tarfile_path) as (tar, inner_checksum, outer_checksum):
# Tarball the install prefix
tarfile_of_spec_prefix(tar, binaries_dir)
# Serialize buildinfo for the tarball
bstring = syaml.dump(buildinfo, default_flow_style=True).encode("utf-8")
tarinfo = tarfile.TarInfo(name=_tarinfo_name(buildinfo_file_name(binaries_dir)))
tarinfo.type = tarfile.REGTYPE
tarinfo.size = len(bstring)
tarinfo.mode = 0o644
tar.addfile(tarinfo, io.BytesIO(bstring))
return inner_checksum.hexdigest(), outer_checksum.hexdigest()
class PushOptions(NamedTuple):
@@ -1279,20 +1387,14 @@ def _build_tarball_in_stage_dir(spec: Spec, out_url: str, stage_dir: str, option
):
raise NoOverwriteException(url_util.format(remote_specfile_path))
pkg_dir = os.path.basename(spec.prefix.rstrip(os.path.sep))
binaries_dir = spec.prefix
# create info for later relocation and create tar
buildinfo = get_buildinfo_dict(spec)
_do_create_tarball(tarfile_path, binaries_dir, pkg_dir, buildinfo)
# get the sha256 checksum of the tarball
checksum = checksum_tarball(tarfile_path)
checksum, _ = _do_create_tarball(tarfile_path, binaries_dir, buildinfo)
# add sha256 checksum to spec.json
with open(spec_file, "r") as inputfile:
content = inputfile.read()
if spec_file.endswith(".json"):
@@ -1335,10 +1437,21 @@ def _build_tarball_in_stage_dir(spec: Spec, out_url: str, stage_dir: str, option
return None
class NotInstalledError(spack.error.SpackError):
"""Raised when a spec is not installed but picked to be packaged."""
def __init__(self, specs: List[Spec]):
super().__init__(
"Cannot push non-installed packages",
", ".join(s.cformat("{name}{@version}{/hash:7}") for s in specs),
)
def specs_to_be_packaged(
specs: List[Spec], root: bool = True, dependencies: bool = True
) -> List[Spec]:
"""Return the list of nodes to be packaged, given a list of specs.
Raises NotInstalledError if a spec is not installed but picked to be packaged.
Args:
specs: list of root specs to be processed
@@ -1346,19 +1459,35 @@ def specs_to_be_packaged(
dependencies: include the dependencies of each
spec in the nodes
"""
if not root and not dependencies:
return []
elif dependencies:
nodes = traverse.traverse_nodes(specs, root=root, deptype="all")
else:
nodes = set(specs)
# Limit to installed non-externals.
packageable = lambda n: not n.external and n.installed
# Mass install check
# Filter packageable roots
with spack.store.STORE.db.read_transaction():
return list(filter(packageable, nodes))
if root:
# Error on uninstalled roots, when roots are requested
uninstalled_roots = list(s for s in specs if not s.installed)
if uninstalled_roots:
raise NotInstalledError(uninstalled_roots)
roots = specs
else:
roots = []
if dependencies:
# Error on uninstalled deps, when deps are requested
deps = list(
traverse.traverse_nodes(
specs, deptype="all", order="breadth", root=False, key=traverse.by_dag_hash
)
)
uninstalled_deps = list(s for s in deps if not s.installed)
if uninstalled_deps:
raise NotInstalledError(uninstalled_deps)
else:
deps = []
return [s for s in itertools.chain(roots, deps) if not s.external]
def push(spec: Spec, mirror_url: str, options: PushOptions):
@@ -1466,8 +1595,6 @@ def download_tarball(spec, unsigned=False, mirrors_for_spec=None):
tarball = tarball_path_name(spec, ".spack")
specfile_prefix = tarball_name(spec, ".spec")
mirrors_to_try = []
# Note on try_first and try_next:
# mirrors_for_spec mostly likely came from spack caching remote
# mirror indices locally and adding their specs to a local data
@@ -1480,63 +1607,116 @@ def download_tarball(spec, unsigned=False, mirrors_for_spec=None):
try_first = [i["mirror_url"] for i in mirrors_for_spec] if mirrors_for_spec else []
try_next = [i.fetch_url for i in configured_mirrors if i.fetch_url not in try_first]
for url in try_first + try_next:
mirrors_to_try.append(
{
"specfile": url_util.join(url, _build_cache_relative_path, specfile_prefix),
"spackfile": url_util.join(url, _build_cache_relative_path, tarball),
}
)
mirrors = try_first + try_next
tried_to_verify_sigs = []
# Assumes we care more about finding a spec file by preferred ext
# than by mirrory priority. This can be made less complicated as
# we remove support for deprecated spec formats and buildcache layouts.
for ext in ["json.sig", "json"]:
for mirror_to_try in mirrors_to_try:
specfile_url = "{0}.{1}".format(mirror_to_try["specfile"], ext)
spackfile_url = mirror_to_try["spackfile"]
local_specfile_stage = try_fetch(specfile_url)
if local_specfile_stage:
local_specfile_path = local_specfile_stage.save_filename
signature_verified = False
for try_signed in (True, False):
for mirror in mirrors:
# If it's an OCI index, do things differently, since we cannot compose URLs.
parsed = urllib.parse.urlparse(mirror)
if ext.endswith(".sig") and not unsigned:
# If we found a signed specfile at the root, try to verify
# the signature immediately. We will not download the
# tarball if we could not verify the signature.
tried_to_verify_sigs.append(specfile_url)
signature_verified = try_verify(local_specfile_path)
if not signature_verified:
tty.warn("Failed to verify: {0}".format(specfile_url))
# TODO: refactor this to some "nice" place.
if parsed.scheme == "oci":
ref = spack.oci.image.ImageReference.from_string(mirror[len("oci://") :]).with_tag(
spack.oci.image.default_tag(spec)
)
if unsigned or signature_verified or not ext.endswith(".sig"):
# We will download the tarball in one of three cases:
# 1. user asked for --no-check-signature
# 2. user didn't ask for --no-check-signature, but we
# found a spec.json.sig and verified the signature already
# 3. neither of the first two cases are true, but this file
# is *not* a signed json (not a spec.json.sig file). That
# means we already looked at all the mirrors and either didn't
# find any .sig files or couldn't verify any of them. But it
# is still possible to find an old style binary package where
# the signature is a detached .asc file in the outer archive
# of the tarball, and in that case, the only way to know is to
# download the tarball. This is a deprecated use case, so if
# something goes wrong during the extraction process (can't
# verify signature, checksum doesn't match) we will fail at
# that point instead of trying to download more tarballs from
# the remaining mirrors, looking for one we can use.
tarball_stage = try_fetch(spackfile_url)
if tarball_stage:
return {
"tarball_stage": tarball_stage,
"specfile_stage": local_specfile_stage,
"signature_verified": signature_verified,
}
# Fetch the manifest
try:
response = spack.oci.opener.urlopen(
urllib.request.Request(
url=ref.manifest_url(),
headers={"Accept": "application/vnd.oci.image.manifest.v1+json"},
)
)
except Exception:
continue
local_specfile_stage.destroy()
# Download the config = spec.json and the relevant tarball
try:
manifest = json.loads(response.read())
spec_digest = spack.oci.image.Digest.from_string(manifest["config"]["digest"])
tarball_digest = spack.oci.image.Digest.from_string(
manifest["layers"][-1]["digest"]
)
except Exception:
continue
with spack.oci.oci.make_stage(
ref.blob_url(spec_digest), spec_digest, keep=True
) as local_specfile_stage:
try:
local_specfile_stage.fetch()
local_specfile_stage.check()
except Exception:
continue
local_specfile_stage.cache_local()
with spack.oci.oci.make_stage(
ref.blob_url(tarball_digest), tarball_digest, keep=True
) as tarball_stage:
try:
tarball_stage.fetch()
tarball_stage.check()
except Exception:
continue
tarball_stage.cache_local()
return {
"tarball_stage": tarball_stage,
"specfile_stage": local_specfile_stage,
"signature_verified": False,
}
else:
ext = "json.sig" if try_signed else "json"
specfile_path = url_util.join(mirror, _build_cache_relative_path, specfile_prefix)
specfile_url = f"{specfile_path}.{ext}"
spackfile_url = url_util.join(mirror, _build_cache_relative_path, tarball)
local_specfile_stage = try_fetch(specfile_url)
if local_specfile_stage:
local_specfile_path = local_specfile_stage.save_filename
signature_verified = False
if try_signed and not unsigned:
# If we found a signed specfile at the root, try to verify
# the signature immediately. We will not download the
# tarball if we could not verify the signature.
tried_to_verify_sigs.append(specfile_url)
signature_verified = try_verify(local_specfile_path)
if not signature_verified:
tty.warn("Failed to verify: {0}".format(specfile_url))
if unsigned or signature_verified or not try_signed:
# We will download the tarball in one of three cases:
# 1. user asked for --no-check-signature
# 2. user didn't ask for --no-check-signature, but we
# found a spec.json.sig and verified the signature already
# 3. neither of the first two cases are true, but this file
# is *not* a signed json (not a spec.json.sig file). That
# means we already looked at all the mirrors and either didn't
# find any .sig files or couldn't verify any of them. But it
# is still possible to find an old style binary package where
# the signature is a detached .asc file in the outer archive
# of the tarball, and in that case, the only way to know is to
# download the tarball. This is a deprecated use case, so if
# something goes wrong during the extraction process (can't
# verify signature, checksum doesn't match) we will fail at
# that point instead of trying to download more tarballs from
# the remaining mirrors, looking for one we can use.
tarball_stage = try_fetch(spackfile_url)
if tarball_stage:
return {
"tarball_stage": tarball_stage,
"specfile_stage": local_specfile_stage,
"signature_verified": signature_verified,
}
local_specfile_stage.destroy()
# Falling through the nested loops meeans we exhaustively searched
# for all known kinds of spec files on all mirrors and did not find
@@ -1581,9 +1761,10 @@ def dedupe_hardlinks_if_necessary(root, buildinfo):
for rel_path in buildinfo[key]:
stat_result = os.lstat(os.path.join(root, rel_path))
identifier = (stat_result.st_dev, stat_result.st_ino)
if identifier in visited:
continue
visited.add(identifier)
if stat_result.st_nlink > 1:
if identifier in visited:
continue
visited.add(identifier)
new_list.append(rel_path)
buildinfo[key] = new_list
@@ -1768,7 +1949,7 @@ def _extract_inner_tarball(spec, filename, extract_to, unsigned, remote_checksum
)
# compute the sha256 checksum of the tarball
local_checksum = checksum_tarball(tarfile_path)
local_checksum = spack.util.crypto.checksum(hashlib.sha256, tarfile_path)
expected = remote_checksum["hash"]
# if the checksums don't match don't install
@@ -1829,6 +2010,7 @@ def extract_tarball(spec, download_result, unsigned=False, force=False, timer=ti
spec_dict = sjson.load(content)
bchecksum = spec_dict["binary_cache_checksum"]
filename = download_result["tarball_stage"].save_filename
signature_verified = download_result["signature_verified"]
tmpdir = None
@@ -1861,7 +2043,7 @@ def extract_tarball(spec, download_result, unsigned=False, force=False, timer=ti
)
# compute the sha256 checksum of the tarball
local_checksum = checksum_tarball(tarfile_path)
local_checksum = spack.util.crypto.checksum(hashlib.sha256, tarfile_path)
expected = bchecksum["hash"]
# if the checksums don't match don't install
@@ -2067,7 +2249,7 @@ def get_mirrors_for_spec(spec=None, mirrors_to_check=None, index_only=False):
tty.debug("No Spack mirrors are currently configured")
return {}
results = binary_index.find_built_spec(spec, mirrors_to_check=mirrors_to_check)
results = BINARY_INDEX.find_built_spec(spec, mirrors_to_check=mirrors_to_check)
# The index may be out-of-date. If we aren't only considering indices, try
# to fetch directly since we know where the file should be.
@@ -2076,7 +2258,7 @@ def get_mirrors_for_spec(spec=None, mirrors_to_check=None, index_only=False):
# We found a spec by the direct fetch approach, we might as well
# add it to our mapping.
if results:
binary_index.update_spec(spec, results)
BINARY_INDEX.update_spec(spec, results)
return results
@@ -2092,12 +2274,12 @@ def update_cache_and_get_specs():
Throws:
FetchCacheError
"""
binary_index.update()
return binary_index.get_all_built_specs()
BINARY_INDEX.update()
return BINARY_INDEX.get_all_built_specs()
def clear_spec_cache():
binary_index.clear()
BINARY_INDEX.clear()
def get_keys(install=False, trust=False, force=False, mirrors=None):
@@ -2420,7 +2602,7 @@ def get_remote_hash(self):
return None
return remote_hash.decode("utf-8")
def conditional_fetch(self):
def conditional_fetch(self) -> FetchIndexResult:
# Do an intermediate fetch for the hash
# and a conditional fetch for the contents
@@ -2434,12 +2616,12 @@ def conditional_fetch(self):
try:
response = self.urlopen(urllib.request.Request(url_index, headers=self.headers))
except urllib.error.URLError as e:
raise FetchIndexError("Could not fetch index from {}".format(url_index), e)
raise FetchIndexError("Could not fetch index from {}".format(url_index), e) from e
try:
result = codecs.getreader("utf-8")(response).read()
except ValueError as e:
return FetchCacheError("Remote index {} is invalid".format(url_index), e)
raise FetchIndexError("Remote index {} is invalid".format(url_index), e) from e
computed_hash = compute_hash(result)
@@ -2471,7 +2653,7 @@ def __init__(self, url, etag, urlopen=web_util.urlopen):
self.etag = etag
self.urlopen = urlopen
def conditional_fetch(self):
def conditional_fetch(self) -> FetchIndexResult:
# Just do a conditional fetch immediately
url = url_util.join(self.url, _build_cache_relative_path, "index.json")
headers = {
@@ -2502,3 +2684,59 @@ def conditional_fetch(self):
data=result,
fresh=False,
)
class OCIIndexFetcher:
def __init__(self, url: str, local_hash, urlopen=None) -> None:
self.local_hash = local_hash
# Remove oci:// prefix
assert url.startswith("oci://")
self.ref = spack.oci.image.ImageReference.from_string(url[6:])
self.urlopen = urlopen or spack.oci.opener.urlopen
def conditional_fetch(self) -> FetchIndexResult:
"""Download an index from an OCI registry type mirror."""
url_manifest = self.ref.with_tag(spack.oci.image.default_index_tag).manifest_url()
try:
response = self.urlopen(
urllib.request.Request(
url=url_manifest,
headers={"Accept": "application/vnd.oci.image.manifest.v1+json"},
)
)
except urllib.error.URLError as e:
raise FetchIndexError(
"Could not fetch manifest from {}".format(url_manifest), e
) from e
try:
manifest = json.loads(response.read())
except Exception as e:
raise FetchIndexError("Remote index {} is invalid".format(url_manifest), e) from e
# Get first blob hash, which should be the index.json
try:
index_digest = spack.oci.image.Digest.from_string(manifest["layers"][0]["digest"])
except Exception as e:
raise FetchIndexError("Remote index {} is invalid".format(url_manifest), e) from e
# Fresh?
if index_digest.digest == self.local_hash:
return FetchIndexResult(etag=None, hash=None, data=None, fresh=True)
# Otherwise fetch the blob / index.json
response = self.urlopen(
urllib.request.Request(
url=self.ref.blob_url(index_digest),
headers={"Accept": "application/vnd.oci.image.layer.v1.tar+gzip"},
)
)
result = codecs.getreader("utf-8")(response).read()
# Make sure the blob we download has the advertised hash
if compute_hash(result) != index_digest.digest:
raise FetchIndexError(f"Remote index {url_manifest} is invalid")
return FetchIndexResult(etag=None, hash=index_digest.digest, data=result, fresh=False)

View File

@@ -143,7 +143,9 @@ def _bootstrap_config_scopes() -> Sequence["spack.config.ConfigScope"]:
def _add_compilers_if_missing() -> None:
arch = spack.spec.ArchSpec.frontend_arch()
if not spack.compilers.compilers_for_arch(arch):
new_compilers = spack.compilers.find_new_compilers()
new_compilers = spack.compilers.find_new_compilers(
mixed_toolchain=sys.platform == "darwin"
)
if new_compilers:
spack.compilers.add_compilers_to_config(new_compilers, init_config=False)

View File

@@ -214,7 +214,7 @@ def _install_and_test(
with spack.config.override(self.mirror_scope):
# This index is currently needed to get the compiler used to build some
# specs that we know by dag hash.
spack.binary_distribution.binary_index.regenerate_spec_cache()
spack.binary_distribution.BINARY_INDEX.regenerate_spec_cache()
index = spack.binary_distribution.update_cache_and_get_specs()
if not index:
@@ -228,7 +228,7 @@ def _install_and_test(
if not abstract_spec.intersects(candidate_spec):
continue
if python_spec is not None and python_spec not in abstract_spec:
if python_spec is not None and not abstract_spec.intersects(f"^{python_spec}"):
continue
for _, pkg_hash, pkg_sha256 in item["binaries"]:
@@ -291,6 +291,10 @@ def try_import(self, module: str, abstract_spec_str: str) -> bool:
with spack_python_interpreter():
# Add hint to use frontend operating system on Cray
concrete_spec = spack.spec.Spec(abstract_spec_str + " ^" + spec_for_current_python())
# This is needed to help the old concretizer taking the `setuptools` dependency
# only when bootstrapping from sources on Python 3.12
if spec_for_current_python() == "python@3.12":
concrete_spec.constrain("+force_setuptools")
if module == "clingo":
# TODO: remove when the old concretizer is deprecated # pylint: disable=fixme
@@ -446,16 +450,11 @@ def ensure_executables_in_path_or_raise(
current_bootstrapper.last_search["spec"],
current_bootstrapper.last_search["command"],
)
env_mods = spack.util.environment.EnvironmentModifications()
for dep in concrete_spec.traverse(
root=True, order="post", deptype=("link", "run")
):
env_mods.extend(
spack.user_environment.environment_modifications_for_spec(
dep, set_package_py_globals=False
)
cmd.add_default_envmod(
spack.user_environment.environment_modifications_for_specs(
concrete_spec, set_package_py_globals=False
)
cmd.add_default_envmod(env_mods)
)
return cmd
assert exception_handler, (

View File

@@ -40,11 +40,15 @@
import sys
import traceback
import types
from collections import defaultdict
from enum import Flag, auto
from itertools import chain
from typing import List, Tuple
import llnl.util.tty as tty
from llnl.string import plural
from llnl.util.filesystem import join_path
from llnl.util.lang import dedupe
from llnl.util.lang import dedupe, stable_partition
from llnl.util.symlink import symlink
from llnl.util.tty.color import cescape, colorize
from llnl.util.tty.log import MultiProcessFd
@@ -54,17 +58,21 @@
import spack.build_systems.python
import spack.builder
import spack.config
import spack.deptypes as dt
import spack.main
import spack.package_base
import spack.paths
import spack.platforms
import spack.repo
import spack.schema.environment
import spack.spec
import spack.store
import spack.subprocess_context
import spack.user_environment
import spack.util.path
import spack.util.pattern
from spack import traverse
from spack.context import Context
from spack.error import NoHeadersError, NoLibrariesError
from spack.install_test import spack_install_test_log
from spack.installer import InstallError
@@ -75,14 +83,12 @@
env_flag,
filter_system_paths,
get_path,
inspect_path,
is_system_path,
validate,
)
from spack.util.executable import Executable
from spack.util.log_parse import make_log_context, parse_log_events
from spack.util.module_cmd import load_module, module, path_from_modules
from spack.util.string import plural
#
# This can be set by the user to globally disable parallel builds.
@@ -109,7 +115,6 @@
SPACK_CCACHE_BINARY = "SPACK_CCACHE_BINARY"
SPACK_SYSTEM_DIRS = "SPACK_SYSTEM_DIRS"
# Platform-specific library suffix.
if sys.platform == "darwin":
dso_suffix = "dylib"
@@ -406,19 +411,13 @@ def set_compiler_environment_variables(pkg, env):
def set_wrapper_variables(pkg, env):
"""Set environment variables used by the Spack compiler wrapper
(which have the prefix `SPACK_`) and also add the compiler wrappers
to PATH.
"""Set environment variables used by the Spack compiler wrapper (which have the prefix
`SPACK_`) and also add the compiler wrappers to PATH.
This determines the injected -L/-I/-rpath options; each
of these specifies a search order and this function computes these
options in a manner that is intended to match the DAG traversal order
in `modifications_from_dependencies`: that method uses a post-order
traversal so that `PrependPath` actions from dependencies take lower
precedence; we use a post-order traversal here to match the visitation
order of `modifications_from_dependencies` (so we are visiting the
lowest priority packages first).
"""
This determines the injected -L/-I/-rpath options; each of these specifies a search order and
this function computes these options in a manner that is intended to match the DAG traversal
order in `SetupContext`. TODO: this is not the case yet, we're using post order, SetupContext
is using topo order."""
# Set environment variables if specified for
# the given compiler
compiler = pkg.compiler
@@ -537,45 +536,42 @@ def update_compiler_args_for_dep(dep):
env.set(SPACK_RPATH_DIRS, ":".join(rpath_dirs))
def set_module_variables_for_package(pkg):
def set_package_py_globals(pkg, context: Context = Context.BUILD):
"""Populate the Python module of a package with some useful global names.
This makes things easier for package writers.
"""
# Put a marker on this module so that it won't execute the body of this
# function again, since it is not needed
marker = "_set_run_already_called"
if getattr(pkg.module, marker, False):
return
module = ModuleChangePropagator(pkg)
jobs = determine_number_of_jobs(parallel=pkg.parallel)
m = module
m.make_jobs = jobs
# TODO: make these build deps that can be installed if not found.
m.make = MakeExecutable("make", jobs)
m.ninja = MakeExecutable("ninja", jobs, supports_jobserver=False)
# TODO: johnwparent: add package or builder support to define these build tools
# for now there is no entrypoint for builders to define these on their
# own
if sys.platform == "win32":
m.nmake = Executable("nmake")
m.msbuild = Executable("msbuild")
# analog to configure for win32
m.cscript = Executable("cscript")
if context == Context.BUILD:
jobs = determine_number_of_jobs(parallel=pkg.parallel)
m.make_jobs = jobs
# Find the configure script in the archive path
# Don't use which for this; we want to find it in the current dir.
m.configure = Executable("./configure")
# TODO: make these build deps that can be installed if not found.
m.make = MakeExecutable("make", jobs)
m.gmake = MakeExecutable("gmake", jobs)
m.ninja = MakeExecutable("ninja", jobs, supports_jobserver=False)
# TODO: johnwparent: add package or builder support to define these build tools
# for now there is no entrypoint for builders to define these on their
# own
if sys.platform == "win32":
m.nmake = Executable("nmake")
m.msbuild = Executable("msbuild")
# analog to configure for win32
m.cscript = Executable("cscript")
# Standard CMake arguments
m.std_cmake_args = spack.build_systems.cmake.CMakeBuilder.std_args(pkg)
m.std_meson_args = spack.build_systems.meson.MesonBuilder.std_args(pkg)
m.std_pip_args = spack.build_systems.python.PythonPipBuilder.std_args(pkg)
# Find the configure script in the archive path
# Don't use which for this; we want to find it in the current dir.
m.configure = Executable("./configure")
# Put spack compiler paths in module scope.
# Standard CMake arguments
m.std_cmake_args = spack.build_systems.cmake.CMakeBuilder.std_args(pkg)
m.std_meson_args = spack.build_systems.meson.MesonBuilder.std_args(pkg)
m.std_pip_args = spack.build_systems.python.PythonPipBuilder.std_args(pkg)
# Put spack compiler paths in module scope. (Some packages use it
# in setup_run_environment etc, so don't put it context == build)
link_dir = spack.paths.build_env_path
m.spack_cc = os.path.join(link_dir, pkg.compiler.link_paths["cc"])
m.spack_cxx = os.path.join(link_dir, pkg.compiler.link_paths["cxx"])
@@ -599,9 +595,6 @@ def static_to_shared_library(static_lib, shared_lib=None, **kwargs):
m.static_to_shared_library = static_to_shared_library
# Put a marker on this module so that it won't execute the body of this
# function again, since it is not needed
setattr(m, marker, True)
module.propagate_changes_to_mro()
@@ -727,12 +720,15 @@ def load_external_modules(pkg):
load_module(external_module)
def setup_package(pkg, dirty, context="build"):
def setup_package(pkg, dirty, context: Context = Context.BUILD):
"""Execute all environment setup routines."""
if context not in ["build", "test"]:
raise ValueError("'context' must be one of ['build', 'test'] - got: {0}".format(context))
if context not in (Context.BUILD, Context.TEST):
raise ValueError(f"'context' must be Context.BUILD or Context.TEST - got {context}")
set_module_variables_for_package(pkg)
# First populate the package.py's module with the relevant globals that could be used in any
# of the setup_* functions.
setup_context = SetupContext(pkg.spec, context=context)
setup_context.set_all_package_py_globals()
# Keep track of env changes from packages separately, since we want to
# issue warnings when packages make "suspicious" modifications.
@@ -740,13 +736,15 @@ def setup_package(pkg, dirty, context="build"):
env_mods = EnvironmentModifications()
# setup compilers for build contexts
need_compiler = context == "build" or (context == "test" and pkg.test_requires_compiler)
need_compiler = context == Context.BUILD or (
context == Context.TEST and pkg.test_requires_compiler
)
if need_compiler:
set_compiler_environment_variables(pkg, env_mods)
set_wrapper_variables(pkg, env_mods)
tty.debug("setup_package: grabbing modifications from dependencies")
env_mods.extend(modifications_from_dependencies(pkg.spec, context, custom_mods_only=False))
env_mods.extend(setup_context.get_env_modifications())
tty.debug("setup_package: collected all modifications from dependencies")
# architecture specific setup
@@ -754,28 +752,13 @@ def setup_package(pkg, dirty, context="build"):
target = platform.target(pkg.spec.architecture.target)
platform.setup_platform_environment(pkg, env_mods)
if context == "build":
tty.debug("setup_package: setup build environment for root")
builder = spack.builder.create(pkg)
builder.setup_build_environment(env_mods)
if (not dirty) and (not env_mods.is_unset("CPATH")):
tty.debug(
"A dependency has updated CPATH, this may lead pkg-"
"config to assume that the package is part of the system"
" includes and omit it when invoked with '--cflags'."
)
elif context == "test":
tty.debug("setup_package: setup test environment for root")
env_mods.extend(
inspect_path(
pkg.spec.prefix,
spack.user_environment.prefix_inspections(pkg.spec.platform),
exclude=is_system_path,
)
)
pkg.setup_run_environment(env_mods)
if context == Context.TEST:
env_mods.prepend_path("PATH", ".")
elif context == Context.BUILD and not dirty and not env_mods.is_unset("CPATH"):
tty.debug(
"A dependency has updated CPATH, this may lead pkg-config to assume that the package "
"is part of the system includes and omit it when invoked with '--cflags'."
)
# First apply the clean environment changes
env_base.apply_modifications()
@@ -813,158 +796,257 @@ def setup_package(pkg, dirty, context="build"):
return env_base
def _make_runnable(pkg, env):
# Helper method which prepends a Package's bin/ prefix to the PATH
# environment variable
prefix = pkg.prefix
class EnvironmentVisitor:
def __init__(self, *roots: spack.spec.Spec, context: Context):
# For the roots (well, marked specs) we follow different edges
# than for their deps, depending on the context.
self.root_hashes = set(s.dag_hash() for s in roots)
for dirname in ["bin", "bin64"]:
bin_dir = os.path.join(prefix, dirname)
if os.path.isdir(bin_dir):
env.prepend_path("PATH", bin_dir)
if context == Context.BUILD:
# Drop direct run deps in build context
# We don't really distinguish between install and build time test deps,
# so we include them here as build-time test deps.
self.root_depflag = dt.BUILD | dt.TEST | dt.LINK
elif context == Context.TEST:
# This is more of an extended run environment
self.root_depflag = dt.TEST | dt.RUN | dt.LINK
elif context == Context.RUN:
self.root_depflag = dt.RUN | dt.LINK
def neighbors(self, item):
spec = item.edge.spec
if spec.dag_hash() in self.root_hashes:
depflag = self.root_depflag
else:
depflag = dt.LINK | dt.RUN
return traverse.sort_edges(spec.edges_to_dependencies(depflag=depflag))
def modifications_from_dependencies(
spec, context, custom_mods_only=True, set_package_py_globals=True
):
"""Returns the environment modifications that are required by
the dependencies of a spec and also applies modifications
to this spec's package at module scope, if need be.
class UseMode(Flag):
#: Entrypoint spec (a spec to be built; an env root, etc)
ROOT = auto()
Environment modifications include:
#: A spec used at runtime, but no executables in PATH
RUNTIME = auto()
- Updating PATH so that executables can be found
- Updating CMAKE_PREFIX_PATH and PKG_CONFIG_PATH so that their respective
tools can find Spack-built dependencies
- Running custom package environment modifications
#: A spec used at runtime, with executables in PATH
RUNTIME_EXECUTABLE = auto()
Custom package modifications can conflict with the default PATH changes
we make (specifically for the PATH, CMAKE_PREFIX_PATH, and PKG_CONFIG_PATH
environment variables), so this applies changes in a fixed order:
#: A spec that's a direct build or test dep
BUILDTIME_DIRECT = auto()
- All modifications (custom and default) from external deps first
- All modifications from non-external deps afterwards
#: A spec that should be visible in search paths in a build env.
BUILDTIME = auto()
With that order, `PrependPath` actions from non-external default
environment modifications will take precedence over custom modifications
from external packages.
#: Flag is set when the (node, mode) is finalized
ADDED = auto()
A secondary constraint is that custom and default modifications are
grouped on a per-package basis: combined with the post-order traversal this
means that default modifications of dependents can override custom
modifications of dependencies (again, this would only occur for PATH,
CMAKE_PREFIX_PATH, or PKG_CONFIG_PATH).
Args:
spec (spack.spec.Spec): spec for which we want the modifications
context (str): either 'build' for build-time modifications or 'run'
for run-time modifications
custom_mods_only (bool): if True returns only custom modifications, if False
returns custom and default modifications
set_package_py_globals (bool): whether or not to set the global variables in the
package.py files (this may be problematic when using buildcaches that have
been built on a different but compatible OS)
"""
if context not in ["build", "run", "test"]:
raise ValueError(
"Expecting context to be one of ['build', 'run', 'test'], " "got: {0}".format(context)
def effective_deptypes(
*specs: spack.spec.Spec, context: Context = Context.BUILD
) -> List[Tuple[spack.spec.Spec, UseMode]]:
"""Given a list of input specs and a context, return a list of tuples of
all specs that contribute to (environment) modifications, together with
a flag specifying in what way they do so. The list is ordered topologically
from root to leaf, meaning that environment modifications should be applied
in reverse so that dependents override dependencies, not the other way around."""
visitor = traverse.TopoVisitor(
EnvironmentVisitor(*specs, context=context),
key=lambda x: x.dag_hash(),
root=True,
all_edges=True,
)
traverse.traverse_depth_first_with_visitor(traverse.with_artificial_edges(specs), visitor)
# Dictionary with "no mode" as default value, so it's easy to write modes[x] |= flag.
use_modes = defaultdict(lambda: UseMode(0))
nodes_with_type = []
for edge in visitor.edges:
parent, child, depflag = edge.parent, edge.spec, edge.depflag
# Mark the starting point
if parent is None:
use_modes[child] = UseMode.ROOT
continue
parent_mode = use_modes[parent]
# Nothing to propagate.
if not parent_mode:
continue
# Dependending on the context, include particular deps from the root.
if UseMode.ROOT & parent_mode:
if context == Context.BUILD:
if (dt.BUILD | dt.TEST) & depflag:
use_modes[child] |= UseMode.BUILDTIME_DIRECT
if dt.LINK & depflag:
use_modes[child] |= UseMode.BUILDTIME
elif context == Context.TEST:
if (dt.RUN | dt.TEST) & depflag:
use_modes[child] |= UseMode.RUNTIME_EXECUTABLE
elif dt.LINK & depflag:
use_modes[child] |= UseMode.RUNTIME
elif context == Context.RUN:
if dt.RUN & depflag:
use_modes[child] |= UseMode.RUNTIME_EXECUTABLE
elif dt.LINK & depflag:
use_modes[child] |= UseMode.RUNTIME
# Propagate RUNTIME and RUNTIME_EXECUTABLE through link and run deps.
if (UseMode.RUNTIME | UseMode.RUNTIME_EXECUTABLE | UseMode.BUILDTIME_DIRECT) & parent_mode:
if dt.LINK & depflag:
use_modes[child] |= UseMode.RUNTIME
if dt.RUN & depflag:
use_modes[child] |= UseMode.RUNTIME_EXECUTABLE
# Propagate BUILDTIME through link deps.
if UseMode.BUILDTIME & parent_mode:
if dt.LINK & depflag:
use_modes[child] |= UseMode.BUILDTIME
# Finalize the spec; the invariant is that all in-edges are processed
# before out-edges, meaning that parent is done.
if not (UseMode.ADDED & parent_mode):
use_modes[parent] |= UseMode.ADDED
nodes_with_type.append((parent, parent_mode))
# Attach the leaf nodes, since we only added nodes with out-edges.
for spec, parent_mode in use_modes.items():
if parent_mode and not (UseMode.ADDED & parent_mode):
nodes_with_type.append((spec, parent_mode))
return nodes_with_type
class SetupContext:
"""This class encapsulates the logic to determine environment modifications, and is used as
well to set globals in modules of package.py."""
def __init__(self, *specs: spack.spec.Spec, context: Context) -> None:
"""Construct a ModificationsFromDag object.
Args:
specs: single root spec for build/test context, possibly more for run context
context: build, run, or test"""
if (context == Context.BUILD or context == Context.TEST) and not len(specs) == 1:
raise ValueError("Cannot setup build environment for multiple specs")
specs_with_type = effective_deptypes(*specs, context=context)
self.specs = specs
self.context = context
self.external: List[Tuple[spack.spec.Spec, UseMode]]
self.nonexternal: List[Tuple[spack.spec.Spec, UseMode]]
# Reverse so we go from leaf to root
self.nodes_in_subdag = set(id(s) for s, _ in specs_with_type)
# Split into non-external and external, maintaining topo order per group.
self.external, self.nonexternal = stable_partition(
reversed(specs_with_type), lambda t: t[0].external
)
self.should_be_runnable = UseMode.BUILDTIME_DIRECT | UseMode.RUNTIME_EXECUTABLE
self.should_setup_run_env = (
UseMode.BUILDTIME_DIRECT | UseMode.RUNTIME | UseMode.RUNTIME_EXECUTABLE
)
self.should_setup_dependent_build_env = UseMode.BUILDTIME | UseMode.BUILDTIME_DIRECT
self.should_setup_build_env = UseMode.ROOT if context == Context.BUILD else UseMode(0)
env = EnvironmentModifications()
if context == Context.RUN or context == Context.TEST:
self.should_be_runnable |= UseMode.ROOT
self.should_setup_run_env |= UseMode.ROOT
# Note: see computation of 'custom_mod_deps' and 'exe_deps' later in this
# function; these sets form the building blocks of those collections.
build_deps = set(spec.dependencies(deptype=("build", "test")))
link_deps = set(spec.traverse(root=False, deptype="link"))
build_link_deps = build_deps | link_deps
build_and_supporting_deps = set()
for build_dep in build_deps:
build_and_supporting_deps.update(build_dep.traverse(deptype="run"))
run_and_supporting_deps = set(spec.traverse(root=False, deptype=("run", "link")))
test_and_supporting_deps = set()
for test_dep in set(spec.dependencies(deptype="test")):
test_and_supporting_deps.update(test_dep.traverse(deptype="run"))
# Everything that calls setup_run_environment and setup_dependent_* needs globals set.
self.should_set_package_py_globals = (
self.should_setup_dependent_build_env | self.should_setup_run_env | UseMode.ROOT
)
# In a build context, the root and direct build deps need build-specific globals set.
self.needs_build_context = UseMode.ROOT | UseMode.BUILDTIME_DIRECT
# All dependencies that might have environment modifications to apply
custom_mod_deps = set()
if context == "build":
custom_mod_deps.update(build_and_supporting_deps)
# Tests may be performed after build
custom_mod_deps.update(test_and_supporting_deps)
else:
# test/run context
custom_mod_deps.update(run_and_supporting_deps)
if context == "test":
custom_mod_deps.update(test_and_supporting_deps)
custom_mod_deps.update(link_deps)
def set_all_package_py_globals(self):
"""Set the globals in modules of package.py files."""
for dspec, flag in chain(self.external, self.nonexternal):
pkg = dspec.package
# Determine 'exe_deps': the set of packages with binaries we want to use
if context == "build":
exe_deps = build_and_supporting_deps | test_and_supporting_deps
elif context == "run":
exe_deps = set(spec.traverse(deptype="run"))
elif context == "test":
exe_deps = test_and_supporting_deps
if self.should_set_package_py_globals & flag:
if self.context == Context.BUILD and self.needs_build_context & flag:
set_package_py_globals(pkg, context=Context.BUILD)
else:
# This includes runtime dependencies, also runtime deps of direct build deps.
set_package_py_globals(pkg, context=Context.RUN)
def default_modifications_for_dep(dep):
if dep in build_link_deps and not is_system_path(dep.prefix) and context == "build":
prefix = dep.prefix
for spec in dspec.dependents():
# Note: some specs have dependents that are unreachable from the root, so avoid
# setting globals for those.
if id(spec) not in self.nodes_in_subdag:
continue
dependent_module = ModuleChangePropagator(spec.package)
pkg.setup_dependent_package(dependent_module, spec)
dependent_module.propagate_changes_to_mro()
env.prepend_path("CMAKE_PREFIX_PATH", prefix)
def get_env_modifications(self) -> EnvironmentModifications:
"""Returns the environment variable modifications for the given input specs and context.
Environment modifications include:
- Updating PATH for packages that are required at runtime
- Updating CMAKE_PREFIX_PATH and PKG_CONFIG_PATH so that their respective
tools can find Spack-built dependencies (when context=build)
- Running custom package environment modifications: setup_run_environment,
setup_dependent_run_environment, setup_build_environment,
setup_dependent_build_environment.
for directory in ("lib", "lib64", "share"):
pcdir = os.path.join(prefix, directory, "pkgconfig")
if os.path.isdir(pcdir):
env.prepend_path("PKG_CONFIG_PATH", pcdir)
The (partial) order imposed on the specs is externals first, then topological
from leaf to root. That way externals cannot contribute search paths that would shadow
Spack's prefixes, and dependents override variables set by dependencies."""
env = EnvironmentModifications()
for dspec, flag in chain(self.external, self.nonexternal):
tty.debug(f"Adding env modifications for {dspec.name}")
pkg = dspec.package
if dep in exe_deps and not is_system_path(dep.prefix):
_make_runnable(dep, env)
if self.should_setup_dependent_build_env & flag:
self._make_buildtime_detectable(dspec, env)
def add_modifications_for_dep(dep):
tty.debug("Adding env modifications for {0}".format(dep.name))
# Some callers of this function only want the custom modifications.
# For callers that want both custom and default modifications, we want
# to perform the default modifications here (this groups custom
# and default modifications together on a per-package basis).
if not custom_mods_only:
default_modifications_for_dep(dep)
for root in self.specs: # there is only one root in build context
spack.builder.create(pkg).setup_dependent_build_environment(env, root)
# Perform custom modifications here (PrependPath actions performed in
# the custom method override the default environment modifications
# we do to help the build, namely for PATH, CMAKE_PREFIX_PATH, and
# PKG_CONFIG_PATH)
if dep in custom_mod_deps:
dpkg = dep.package
if set_package_py_globals:
set_module_variables_for_package(dpkg)
if self.should_setup_build_env & flag:
spack.builder.create(pkg).setup_build_environment(env)
current_module = ModuleChangePropagator(spec.package)
dpkg.setup_dependent_package(current_module, spec)
current_module.propagate_changes_to_mro()
if self.should_be_runnable & flag:
self._make_runnable(dspec, env)
if context == "build":
builder = spack.builder.create(dpkg)
builder.setup_dependent_build_environment(env, spec)
else:
dpkg.setup_dependent_run_environment(env, spec)
tty.debug("Added env modifications for {0}".format(dep.name))
if self.should_setup_run_env & flag:
run_env_mods = EnvironmentModifications()
for spec in dspec.dependents(deptype=dt.LINK | dt.RUN):
if id(spec) in self.nodes_in_subdag:
pkg.setup_dependent_run_environment(run_env_mods, spec)
pkg.setup_run_environment(run_env_mods)
if self.context == Context.BUILD:
# Don't let the runtime environment of comiler like dependencies leak into the
# build env
run_env_mods.drop("CC", "CXX", "F77", "FC")
env.extend(run_env_mods)
# Note that we want to perform environment modifications in a fixed order.
# The Spec.traverse method provides this: i.e. in addition to
# the post-order semantics, it also guarantees a fixed traversal order
# among dependencies which are not constrained by post-order semantics.
for dspec in spec.traverse(root=False, order="post"):
if dspec.external:
add_modifications_for_dep(dspec)
return env
for dspec in spec.traverse(root=False, order="post"):
# Default env modifications for non-external packages can override
# custom modifications of external packages (this can only occur
# for modifications to PATH, CMAKE_PREFIX_PATH, and PKG_CONFIG_PATH)
if not dspec.external:
add_modifications_for_dep(dspec)
def _make_buildtime_detectable(self, dep: spack.spec.Spec, env: EnvironmentModifications):
if is_system_path(dep.prefix):
return
return env
env.prepend_path("CMAKE_PREFIX_PATH", dep.prefix)
for d in ("lib", "lib64", "share"):
pcdir = os.path.join(dep.prefix, d, "pkgconfig")
if os.path.isdir(pcdir):
env.prepend_path("PKG_CONFIG_PATH", pcdir)
def _make_runnable(self, dep: spack.spec.Spec, env: EnvironmentModifications):
if is_system_path(dep.prefix):
return
for d in ("bin", "bin64"):
bin_dir = os.path.join(dep.prefix, d)
if os.path.isdir(bin_dir):
env.prepend_path("PATH", bin_dir)
def get_cmake_prefix_path(pkg):
@@ -996,7 +1078,7 @@ def get_cmake_prefix_path(pkg):
def _setup_pkg_and_run(
serialized_pkg, function, kwargs, write_pipe, input_multiprocess_fd, jsfd1, jsfd2
):
context = kwargs.get("context", "build")
context: str = kwargs.get("context", "build")
try:
# We are in the child process. Python sets sys.stdin to
@@ -1012,7 +1094,7 @@ def _setup_pkg_and_run(
if not kwargs.get("fake", False):
kwargs["unmodified_env"] = os.environ.copy()
kwargs["env_modifications"] = setup_package(
pkg, dirty=kwargs.get("dirty", False), context=context
pkg, dirty=kwargs.get("dirty", False), context=Context.from_string(context)
)
return_value = function(pkg, kwargs)
write_pipe.send(return_value)

View File

@@ -46,6 +46,7 @@ class AutotoolsPackage(spack.package_base.PackageBase):
depends_on("gnuconfig", type="build", when="target=ppc64le:")
depends_on("gnuconfig", type="build", when="target=aarch64:")
depends_on("gnuconfig", type="build", when="target=riscv64:")
depends_on("gmake", type="build")
conflicts("platform=windows")
def flags_to_build_system_args(self, flags):

View File

@@ -142,10 +142,10 @@ def flags_to_build_system_args(self, flags):
# We specify for each of them.
if flags["ldflags"]:
ldflags = " ".join(flags["ldflags"])
ld_string = "-DCMAKE_{0}_LINKER_FLAGS={1}"
# cmake has separate linker arguments for types of builds.
for type in ["EXE", "MODULE", "SHARED", "STATIC"]:
self.cmake_flag_args.append(ld_string.format(type, ldflags))
self.cmake_flag_args.append(f"-DCMAKE_EXE_LINKER_FLAGS={ldflags}")
self.cmake_flag_args.append(f"-DCMAKE_MODULE_LINKER_FLAGS={ldflags}")
self.cmake_flag_args.append(f"-DCMAKE_SHARED_LINKER_FLAGS={ldflags}")
# CMake has libs options separated by language. Apply ours to each.
if flags["ldlibs"]:

View File

@@ -9,7 +9,8 @@
import spack.builder
import spack.package_base
from spack.directives import build_system, conflicts
from spack.directives import build_system, conflicts, depends_on
from spack.multimethod import when
from ._checks import (
BaseBuilder,
@@ -29,7 +30,10 @@ class MakefilePackage(spack.package_base.PackageBase):
legacy_buildsystem = "makefile"
build_system("makefile")
conflicts("platform=windows", when="build_system=makefile")
with when("build_system=makefile"):
conflicts("platform=windows")
depends_on("gmake", type="build")
@spack.builder.builder("makefile")

View File

@@ -10,7 +10,7 @@
import spack.builder
import spack.package_base
from spack.directives import build_system, depends_on, variant
from spack.directives import build_system, conflicts, depends_on, variant
from spack.multimethod import when
from ._checks import BaseBuilder, execute_build_time_tests
@@ -47,6 +47,13 @@ class MesonPackage(spack.package_base.PackageBase):
variant("strip", default=False, description="Strip targets on install")
depends_on("meson", type="build")
depends_on("ninja", type="build")
# Python detection in meson requires distutils to be importable, but distutils no longer
# exists in Python 3.12. In Spack, we can't use setuptools as distutils replacement,
# because the distutils-precedence.pth startup file that setuptools ships with is not run
# when setuptools is in PYTHONPATH; it has to be in system site-packages. In a future meson
# release, the distutils requirement will be dropped, so this conflict can be relaxed.
# We have patches to make it work with meson 1.1 and above.
conflicts("^python@3.12:", when="^meson@:1.0")
def flags_to_build_system_args(self, flags):
"""Produces a list of all command line arguments to pass the specified

View File

@@ -61,6 +61,11 @@ def component_prefix(self):
"""Path to component <prefix>/<component>/<version>."""
return self.prefix.join(join_path(self.component_dir, self.spec.version))
@property
def env_script_args(self):
"""Additional arguments to pass to vars.sh script."""
return ()
def install(self, spec, prefix):
self.install_component(basename(self.url_for_version(spec.version)))
@@ -124,7 +129,7 @@ def setup_run_environment(self, env):
if "~envmods" not in self.spec:
env.extend(
EnvironmentModifications.from_sourcing_file(
join_path(self.component_prefix, "env", "vars.sh")
join_path(self.component_prefix, "env", "vars.sh"), *self.env_script_args
)
)

View File

@@ -23,13 +23,29 @@
import spack.spec
import spack.store
from spack.directives import build_system, depends_on, extends, maintainers
from spack.error import NoHeadersError, NoLibrariesError, SpecError
from spack.error import NoHeadersError, NoLibrariesError
from spack.install_test import test_part
from spack.version import Version
from ._checks import BaseBuilder, execute_install_time_tests
def _flatten_dict(dictionary):
"""Iterable that yields KEY=VALUE paths through a dictionary.
Args:
dictionary: Possibly nested dictionary of arbitrary keys and values.
Yields:
A single path through the dictionary.
"""
for key, item in dictionary.items():
if isinstance(item, dict):
# Recursive case
for value in _flatten_dict(item):
yield f"{key}={value}"
else:
# Base case
yield f"{key}={item}"
class PythonExtension(spack.package_base.PackageBase):
maintainers("adamjstewart")
@@ -362,7 +378,7 @@ class PythonPipBuilder(BaseBuilder):
legacy_long_methods = ("install_options", "global_options", "config_settings")
#: Names associated with package attributes in the old build-system format
legacy_attributes = ("build_directory", "install_time_test_callbacks")
legacy_attributes = ("archive_files", "build_directory", "install_time_test_callbacks")
#: Callback names for install-time test
install_time_test_callbacks = ["test"]
@@ -407,14 +423,15 @@ def build_directory(self):
def config_settings(self, spec, prefix):
"""Configuration settings to be passed to the PEP 517 build backend.
Requires pip 22.1 or newer.
Requires pip 22.1 or newer for keys that appear only a single time,
or pip 23.1 or newer if the same key appears multiple times.
Args:
spec (spack.spec.Spec): build spec
prefix (spack.util.prefix.Prefix): installation prefix
Returns:
dict: dictionary of KEY, VALUE settings
dict: Possibly nested dictionary of KEY, VALUE settings
"""
return {}
@@ -450,29 +467,28 @@ def global_options(self, spec, prefix):
def install(self, pkg, spec, prefix):
"""Install everything from build directory."""
args = PythonPipBuilder.std_args(pkg) + ["--prefix=" + prefix]
for key, value in self.config_settings(spec, prefix).items():
if spec["py-pip"].version < Version("22.1"):
raise SpecError(
"'{}' package uses 'config_settings' which is only supported by "
"pip 22.1+. Add the following line to the package to fix this:\n\n"
' depends_on("py-pip@22.1:", type="build")'.format(spec.name)
)
args.append("--config-settings={}={}".format(key, value))
args = PythonPipBuilder.std_args(pkg) + [f"--prefix={prefix}"]
for setting in _flatten_dict(self.config_settings(spec, prefix)):
args.append(f"--config-settings={setting}")
for option in self.install_options(spec, prefix):
args.append("--install-option=" + option)
args.append(f"--install-option={option}")
for option in self.global_options(spec, prefix):
args.append("--global-option=" + option)
args.append(f"--global-option={option}")
if pkg.stage.archive_file and pkg.stage.archive_file.endswith(".whl"):
args.append(pkg.stage.archive_file)
else:
args.append(".")
pip = inspect.getmodule(pkg).pip
pip = spec["python"].command
# Hide user packages, since we don't have build isolation. This is
# necessary because pip / setuptools may run hooks from arbitrary
# packages during the build. There is no equivalent variable to hide
# system packages, so this is not reliable for external Python.
pip.add_default_env("PYTHONNOUSERSITE", "1")
pip.add_default_arg("-m")
pip.add_default_arg("pip")
with fs.working_dir(self.build_directory):
pip(*args)

View File

@@ -64,7 +64,7 @@ class RacketBuilder(spack.builder.Builder):
@property
def subdirectory(self):
if self.racket_name:
if self.pkg.racket_name:
return "pkgs/{0}".format(self.pkg.racket_name)
return None

View File

@@ -25,6 +25,7 @@
import llnl.util.filesystem as fs
import llnl.util.tty as tty
from llnl.util.lang import memoized
from llnl.util.tty.color import cescape, colorize
import spack
import spack.binary_distribution as bindist
@@ -45,11 +46,30 @@
from spack.reporters import CDash, CDashConfiguration
from spack.reporters.cdash import build_stamp as cdash_build_stamp
JOB_RETRY_CONDITIONS = ["always"]
# See https://docs.gitlab.com/ee/ci/yaml/#retry for descriptions of conditions
JOB_RETRY_CONDITIONS = [
# "always",
"unknown_failure",
"script_failure",
"api_failure",
"stuck_or_timeout_failure",
"runner_system_failure",
"runner_unsupported",
"stale_schedule",
# "job_execution_timeout",
"archived_failure",
"unmet_prerequisites",
"scheduler_failure",
"data_integrity_failure",
]
TEMP_STORAGE_MIRROR_NAME = "ci_temporary_mirror"
SPACK_RESERVED_TAGS = ["public", "protected", "notary"]
# TODO: Remove this in Spack 0.23
SHARED_PR_MIRROR_URL = "s3://spack-binaries-prs/shared_pr_mirror"
JOB_NAME_FORMAT = (
"{name}{@version} {/hash:7} {%compiler.name}{@compiler.version}{arch=architecture}"
)
spack_gpg = spack.main.SpackCommand("gpg")
spack_compiler = spack.main.SpackCommand("compiler")
@@ -69,48 +89,23 @@ def __exit__(self, exc_type, exc_value, exc_traceback):
return False
def get_job_name(spec, osarch, build_group):
"""Given the necessary parts, format the gitlab job name
def get_job_name(spec: spack.spec.Spec, build_group: str = ""):
"""Given a spec and possibly a build group, return the job name. If the
resulting name is longer than 255 characters, it will be truncated.
Arguments:
spec (spack.spec.Spec): Spec job will build
osarch: Architecture TODO: (this is a spack.spec.ArchSpec,
but sphinx doesn't recognize the type and fails).
build_group (str): Name of build group this job belongs to (a CDash
notion)
Returns: The job name
"""
item_idx = 0
format_str = ""
format_args = []
format_str += "{{{0}}}".format(item_idx)
format_args.append(spec.name)
item_idx += 1
format_str += "/{{{0}}}".format(item_idx)
format_args.append(spec.dag_hash(7))
item_idx += 1
format_str += " {{{0}}}".format(item_idx)
format_args.append(spec.version)
item_idx += 1
format_str += " {{{0}}}".format(item_idx)
format_args.append(spec.compiler)
item_idx += 1
format_str += " {{{0}}}".format(item_idx)
format_args.append(osarch)
item_idx += 1
job_name = spec.format(JOB_NAME_FORMAT)
if build_group:
format_str += " {{{0}}}".format(item_idx)
format_args.append(build_group)
item_idx += 1
job_name = "{0} {1}".format(job_name, build_group)
return format_str.format(*format_args)
return job_name[:255]
def _remove_reserved_tags(tags):
@@ -118,15 +113,6 @@ def _remove_reserved_tags(tags):
return [tag for tag in tags if tag not in SPACK_RESERVED_TAGS]
def _get_spec_string(spec):
format_elements = ["{name}{@version}", "{%compiler}"]
if spec.architecture:
format_elements.append(" {arch=architecture}")
return spec.format("".join(format_elements))
def _spec_deps_key(s):
return "{0}/{1}".format(s.name, s.dag_hash(7))
@@ -231,22 +217,22 @@ def _print_staging_summary(spec_labels, stages, mirrors_to_check, rebuild_decisi
tty.msg("Staging summary ([x] means a job needs rebuilding):")
for stage_index, stage in enumerate(stages):
tty.msg(" stage {0} ({1} jobs):".format(stage_index, len(stage)))
tty.msg(f" stage {stage_index} ({len(stage)} jobs):")
for job in sorted(stage):
for job in sorted(stage, key=lambda j: (not rebuild_decisions[j].rebuild, j)):
s = spec_labels[job]
rebuild = rebuild_decisions[job].rebuild
reason = rebuild_decisions[job].reason
reason_msg = " ({0})".format(reason) if reason else ""
tty.msg(
" [{1}] {0} -> {2}{3}".format(
job, "x" if rebuild else " ", _get_spec_string(s), reason_msg
)
)
if rebuild_decisions[job].mirrors:
tty.msg(" found on the following mirrors:")
for murl in rebuild_decisions[job].mirrors:
tty.msg(" {0}".format(murl))
reason_msg = f" ({reason})" if reason else ""
spec_fmt = "{name}{@version}{%compiler}{/hash:7}"
if rebuild_decisions[job].rebuild:
status = colorize("@*g{[x]} ")
msg = f" {status}{s.cformat(spec_fmt)}{reason_msg}"
else:
msg = f"{s.format(spec_fmt)}{reason_msg}"
if rebuild_decisions[job].mirrors:
msg += f" [{', '.join(rebuild_decisions[job].mirrors)}]"
msg = colorize(f" @K - {cescape(msg)}@.")
tty.msg(msg)
def _compute_spec_deps(spec_list):
@@ -337,7 +323,7 @@ def _spec_matches(spec, match_string):
def _format_job_needs(
dep_jobs, osname, build_group, prune_dag, rebuild_decisions, enable_artifacts_buildcache
dep_jobs, build_group, prune_dag, rebuild_decisions, enable_artifacts_buildcache
):
needs_list = []
for dep_job in dep_jobs:
@@ -347,7 +333,7 @@ def _format_job_needs(
if not prune_dag or rebuild:
needs_list.append(
{
"job": get_job_name(dep_job, dep_job.architecture, build_group),
"job": get_job_name(dep_job, build_group),
"artifacts": enable_artifacts_buildcache,
}
)
@@ -700,7 +686,7 @@ def generate_gitlab_ci_yaml(
remote_mirror_override (str): Typically only needed when one spack.yaml
is used to populate several mirrors with binaries, based on some
criteria. Spack protected pipelines populate different mirrors based
on branch name, facilitated by this option.
on branch name, facilitated by this option. DEPRECATED
"""
with spack.concretize.disable_compiler_existence_check():
with env.write_transaction():
@@ -797,17 +783,39 @@ def generate_gitlab_ci_yaml(
"instead.",
)
if "mirrors" not in yaml_root or len(yaml_root["mirrors"].values()) < 1:
tty.die("spack ci generate requires an env containing a mirror")
pipeline_mirrors = spack.mirror.MirrorCollection(binary=True)
deprecated_mirror_config = False
buildcache_destination = None
if "buildcache-destination" in pipeline_mirrors:
if remote_mirror_override:
tty.die(
"Using the deprecated --buildcache-destination cli option and "
"having a mirror named 'buildcache-destination' at the same time "
"is not allowed"
)
buildcache_destination = pipeline_mirrors["buildcache-destination"]
else:
deprecated_mirror_config = True
# TODO: This will be an error in Spack 0.23
ci_mirrors = yaml_root["mirrors"]
mirror_urls = [url for url in ci_mirrors.values()]
remote_mirror_url = mirror_urls[0]
# TODO: Remove this block in spack 0.23
remote_mirror_url = None
if deprecated_mirror_config:
if "mirrors" not in yaml_root or len(yaml_root["mirrors"].values()) < 1:
tty.die("spack ci generate requires an env containing a mirror")
ci_mirrors = yaml_root["mirrors"]
mirror_urls = [url for url in ci_mirrors.values()]
remote_mirror_url = mirror_urls[0]
spack_buildcache_copy = os.environ.get("SPACK_COPY_BUILDCACHE", None)
if spack_buildcache_copy:
buildcache_copies = {}
buildcache_copy_src_prefix = remote_mirror_override or remote_mirror_url
buildcache_copy_src_prefix = (
buildcache_destination.fetch_url
if buildcache_destination
else remote_mirror_override or remote_mirror_url
)
buildcache_copy_dest_prefix = spack_buildcache_copy
# Check for a list of "known broken" specs that we should not bother
@@ -819,6 +827,7 @@ def generate_gitlab_ci_yaml(
enable_artifacts_buildcache = False
if "enable-artifacts-buildcache" in ci_config:
tty.warn("Support for enable-artifacts-buildcache will be removed in Spack 0.23")
enable_artifacts_buildcache = ci_config["enable-artifacts-buildcache"]
rebuild_index_enabled = True
@@ -827,13 +836,15 @@ def generate_gitlab_ci_yaml(
temp_storage_url_prefix = None
if "temporary-storage-url-prefix" in ci_config:
tty.warn("Support for temporary-storage-url-prefix will be removed in Spack 0.23")
temp_storage_url_prefix = ci_config["temporary-storage-url-prefix"]
# If a remote mirror override (alternate buildcache destination) was
# specified, add it here in case it has already built hashes we might
# generate.
# TODO: Remove this block in Spack 0.23
mirrors_to_check = None
if remote_mirror_override:
if deprecated_mirror_config and remote_mirror_override:
if spack_pipeline_type == "spack_protected_branch":
# Overriding the main mirror in this case might result
# in skipping jobs on a release pipeline because specs are
@@ -853,8 +864,9 @@ def generate_gitlab_ci_yaml(
cfg.default_modify_scope(),
)
# TODO: Remove this block in Spack 0.23
shared_pr_mirror = None
if spack_pipeline_type == "spack_pull_request":
if deprecated_mirror_config and spack_pipeline_type == "spack_pull_request":
stack_name = os.environ.get("SPACK_CI_STACK_NAME", "")
shared_pr_mirror = url_util.join(SHARED_PR_MIRROR_URL, stack_name)
spack.mirror.add(
@@ -906,6 +918,7 @@ def generate_gitlab_ci_yaml(
job_log_dir = os.path.join(pipeline_artifacts_dir, "logs")
job_repro_dir = os.path.join(pipeline_artifacts_dir, "reproduction")
job_test_dir = os.path.join(pipeline_artifacts_dir, "tests")
# TODO: Remove this line in Spack 0.23
local_mirror_dir = os.path.join(pipeline_artifacts_dir, "mirror")
user_artifacts_dir = os.path.join(pipeline_artifacts_dir, "user_data")
@@ -920,13 +933,13 @@ def generate_gitlab_ci_yaml(
rel_job_log_dir = os.path.relpath(job_log_dir, ci_project_dir)
rel_job_repro_dir = os.path.relpath(job_repro_dir, ci_project_dir)
rel_job_test_dir = os.path.relpath(job_test_dir, ci_project_dir)
# TODO: Remove this line in Spack 0.23
rel_local_mirror_dir = os.path.join(local_mirror_dir, ci_project_dir)
rel_user_artifacts_dir = os.path.relpath(user_artifacts_dir, ci_project_dir)
# Speed up staging by first fetching binary indices from all mirrors
# (including the override mirror we may have just added above).
try:
bindist.binary_index.update()
bindist.BINARY_INDEX.update()
except bindist.FetchCacheError as e:
tty.warn(e)
@@ -1023,8 +1036,7 @@ def main_script_replacements(cmd):
if "after_script" in job_object:
job_object["after_script"] = _unpack_script(job_object["after_script"])
osname = str(release_spec.architecture)
job_name = get_job_name(release_spec, osname, build_group)
job_name = get_job_name(release_spec, build_group)
job_vars = job_object.setdefault("variables", {})
job_vars["SPACK_JOB_SPEC_DAG_HASH"] = release_spec_dag_hash
@@ -1051,7 +1063,6 @@ def main_script_replacements(cmd):
job_object["needs"].extend(
_format_job_needs(
dep_jobs,
osname,
build_group,
prune_dag,
rebuild_decisions,
@@ -1137,6 +1148,7 @@ def main_script_replacements(cmd):
},
)
# TODO: Remove this block in Spack 0.23
if enable_artifacts_buildcache:
bc_root = os.path.join(local_mirror_dir, "build_cache")
job_object["artifacts"]["paths"].extend(
@@ -1166,10 +1178,12 @@ def main_script_replacements(cmd):
_print_staging_summary(spec_labels, stages, mirrors_to_check, rebuild_decisions)
# Clean up remote mirror override if enabled
if remote_mirror_override:
spack.mirror.remove("ci_pr_mirror", cfg.default_modify_scope())
if spack_pipeline_type == "spack_pull_request":
spack.mirror.remove("ci_shared_pr_mirror", cfg.default_modify_scope())
# TODO: Remove this block in Spack 0.23
if deprecated_mirror_config:
if remote_mirror_override:
spack.mirror.remove("ci_pr_mirror", cfg.default_modify_scope())
if spack_pipeline_type == "spack_pull_request":
spack.mirror.remove("ci_shared_pr_mirror", cfg.default_modify_scope())
tty.debug("{0} build jobs generated in {1} stages".format(job_id, stage_id))
@@ -1200,10 +1214,28 @@ def main_script_replacements(cmd):
sync_job["needs"] = [
{"job": generate_job_name, "pipeline": "{0}".format(parent_pipeline_id)}
]
if "variables" not in sync_job:
sync_job["variables"] = {}
sync_job["variables"]["SPACK_COPY_ONLY_DESTINATION"] = (
buildcache_destination.fetch_url
if buildcache_destination
else remote_mirror_override or remote_mirror_url
)
if "buildcache-source" in pipeline_mirrors:
buildcache_source = pipeline_mirrors["buildcache-source"].fetch_url
else:
# TODO: Remove this condition in Spack 0.23
buildcache_source = os.environ.get("SPACK_SOURCE_MIRROR", None)
sync_job["variables"]["SPACK_BUILDCACHE_SOURCE"] = buildcache_source
output_object["copy"] = sync_job
job_id += 1
if job_id > 0:
# TODO: Remove this block in Spack 0.23
if temp_storage_url_prefix:
# There were some rebuild jobs scheduled, so we will need to
# schedule a job to clean up the temporary storage location
@@ -1237,6 +1269,13 @@ def main_script_replacements(cmd):
signing_job["when"] = "always"
signing_job["retry"] = {"max": 2, "when": ["always"]}
signing_job["interruptible"] = True
if "variables" not in signing_job:
signing_job["variables"] = {}
signing_job["variables"]["SPACK_BUILDCACHE_DESTINATION"] = (
buildcache_destination.push_url # need the s3 url for aws s3 sync
if buildcache_destination
else remote_mirror_override or remote_mirror_url
)
output_object["sign-pkgs"] = signing_job
@@ -1245,13 +1284,13 @@ def main_script_replacements(cmd):
stage_names.append("stage-rebuild-index")
final_job = spack_ci_ir["jobs"]["reindex"]["attributes"]
index_target_mirror = mirror_urls[0]
if remote_mirror_override:
index_target_mirror = remote_mirror_override
final_job["stage"] = "stage-rebuild-index"
target_mirror = remote_mirror_override or remote_mirror_url
if buildcache_destination:
target_mirror = buildcache_destination.push_url
final_job["script"] = _unpack_script(
final_job["script"],
op=lambda cmd: cmd.replace("{index_target_mirror}", index_target_mirror),
op=lambda cmd: cmd.replace("{index_target_mirror}", target_mirror),
)
final_job["when"] = "always"
@@ -1273,20 +1312,24 @@ def main_script_replacements(cmd):
"SPACK_CONCRETE_ENV_DIR": rel_concrete_env_dir,
"SPACK_VERSION": spack_version,
"SPACK_CHECKOUT_VERSION": version_to_clone,
# TODO: Remove this line in Spack 0.23
"SPACK_REMOTE_MIRROR_URL": remote_mirror_url,
"SPACK_JOB_LOG_DIR": rel_job_log_dir,
"SPACK_JOB_REPRO_DIR": rel_job_repro_dir,
"SPACK_JOB_TEST_DIR": rel_job_test_dir,
# TODO: Remove this line in Spack 0.23
"SPACK_LOCAL_MIRROR_DIR": rel_local_mirror_dir,
"SPACK_PIPELINE_TYPE": str(spack_pipeline_type),
"SPACK_CI_STACK_NAME": os.environ.get("SPACK_CI_STACK_NAME", "None"),
# TODO: Remove this line in Spack 0.23
"SPACK_CI_SHARED_PR_MIRROR_URL": shared_pr_mirror or "None",
"SPACK_REBUILD_CHECK_UP_TO_DATE": str(prune_dag),
"SPACK_REBUILD_EVERYTHING": str(rebuild_everything),
"SPACK_REQUIRE_SIGNING": os.environ.get("SPACK_REQUIRE_SIGNING", "False"),
}
if remote_mirror_override:
# TODO: Remove this block in Spack 0.23
if deprecated_mirror_config and remote_mirror_override:
(output_object["variables"]["SPACK_REMOTE_MIRROR_OVERRIDE"]) = remote_mirror_override
spack_stack_name = os.environ.get("SPACK_CI_STACK_NAME", None)
@@ -2026,43 +2069,23 @@ def process_command(name, commands, repro_dir, run=True, exit_on_failure=True):
def create_buildcache(
input_spec: spack.spec.Spec,
*,
pipeline_mirror_url: Optional[str] = None,
buildcache_mirror_url: Optional[str] = None,
sign_binaries: bool = False,
input_spec: spack.spec.Spec, *, destination_mirror_urls: List[str], sign_binaries: bool = False
) -> List[PushResult]:
"""Create the buildcache at the provided mirror(s).
Arguments:
input_spec: Installed spec to package and push
buildcache_mirror_url: URL for the buildcache mirror
pipeline_mirror_url: URL for the pipeline mirror
destination_mirror_urls: List of urls to push to
sign_binaries: Whether or not to sign buildcache entry
Returns: A list of PushResults, indicating success or failure.
"""
results = []
# Create buildcache in either the main remote mirror, or in the
# per-PR mirror, if this is a PR pipeline
if buildcache_mirror_url:
for mirror_url in destination_mirror_urls:
results.append(
PushResult(
success=push_mirror_contents(input_spec, buildcache_mirror_url, sign_binaries),
url=buildcache_mirror_url,
)
)
# Create another copy of that buildcache in the per-pipeline
# temporary storage mirror (this is only done if either
# artifacts buildcache is enabled or a temporary storage url
# prefix is set)
if pipeline_mirror_url:
results.append(
PushResult(
success=push_mirror_contents(input_spec, pipeline_mirror_url, sign_binaries),
url=pipeline_mirror_url,
success=push_mirror_contents(input_spec, mirror_url, sign_binaries), url=mirror_url
)
)
@@ -2242,13 +2265,13 @@ def build_name(self):
spec.architecture,
self.build_group,
)
tty.verbose(
tty.debug(
"Generated CDash build name ({0}) from the {1}".format(build_name, spec.name)
)
return build_name
build_name = os.environ.get("SPACK_CDASH_BUILD_NAME")
tty.verbose("Using CDash build name ({0}) from the environment".format(build_name))
tty.debug("Using CDash build name ({0}) from the environment".format(build_name))
return build_name
@property # type: ignore
@@ -2262,11 +2285,11 @@ def build_stamp(self):
Returns: (str) current CDash build stamp"""
build_stamp = os.environ.get("SPACK_CDASH_BUILD_STAMP")
if build_stamp:
tty.verbose("Using build stamp ({0}) from the environment".format(build_stamp))
tty.debug("Using build stamp ({0}) from the environment".format(build_stamp))
return build_stamp
build_stamp = cdash_build_stamp(self.build_group, time.time())
tty.verbose("Generated new build stamp ({0})".format(build_stamp))
tty.debug("Generated new build stamp ({0})".format(build_stamp))
return build_stamp
@property # type: ignore

View File

@@ -11,6 +11,7 @@
from textwrap import dedent
from typing import List, Match, Tuple
import llnl.string
import llnl.util.tty as tty
from llnl.util.filesystem import join_path
from llnl.util.lang import attr_setdefault, index_by
@@ -29,7 +30,6 @@
import spack.user_environment as uenv
import spack.util.spack_json as sjson
import spack.util.spack_yaml as syaml
import spack.util.string
# cmd has a submodule called "list" so preserve the python list module
python_list = list
@@ -516,7 +516,7 @@ def print_how_many_pkgs(specs, pkg_type=""):
category, e.g. if pkg_type is "installed" then the message
would be "3 installed packages"
"""
tty.msg("%s" % spack.util.string.plural(len(specs), pkg_type + " package"))
tty.msg("%s" % llnl.string.plural(len(specs), pkg_type + " package"))
def spack_is_git_repo():

View File

@@ -3,6 +3,7 @@
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import llnl.util.tty as tty
import llnl.util.tty.colify
import llnl.util.tty.color as cl
import spack.audit
@@ -20,6 +21,15 @@ def setup_parser(subparser):
# Audit configuration files
sp.add_parser("configs", help="audit configuration files")
# Audit package recipes
external_parser = sp.add_parser("externals", help="check external detection in packages")
external_parser.add_argument(
"--list",
action="store_true",
dest="list_externals",
help="if passed, list which packages have detection tests",
)
# Https and other linting
https_parser = sp.add_parser("packages-https", help="check https in packages")
https_parser.add_argument(
@@ -29,7 +39,7 @@ def setup_parser(subparser):
# Audit package recipes
pkg_parser = sp.add_parser("packages", help="audit package recipes")
for group in [pkg_parser, https_parser]:
for group in [pkg_parser, https_parser, external_parser]:
group.add_argument(
"name",
metavar="PKG",
@@ -62,6 +72,18 @@ def packages_https(parser, args):
_process_reports(reports)
def externals(parser, args):
if args.list_externals:
msg = "@*{The following packages have detection tests:}"
tty.msg(cl.colorize(msg))
llnl.util.tty.colify.colify(spack.audit.packages_with_detection_tests(), indent=2)
return
pkgs = args.name or spack.repo.PATH.all_package_names()
reports = spack.audit.run_group(args.subcommand, pkgs=pkgs)
_process_reports(reports)
def list(parser, args):
for subcommand, check_tags in spack.audit.GROUPS.items():
print(cl.colorize("@*b{" + subcommand + "}:"))
@@ -78,6 +100,7 @@ def list(parser, args):
def audit(parser, args):
subcommands = {
"configs": configs,
"externals": externals,
"packages": packages,
"packages-https": packages_https,
"list": list,

View File

@@ -3,6 +3,7 @@
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import spack.cmd.common.env_utility as env_utility
from spack.context import Context
description = (
"run a command in a spec's install environment, or dump its environment to screen or file"
@@ -14,4 +15,4 @@
def build_env(parser, args):
env_utility.emulate_env_utility("build-env", "build", args)
env_utility.emulate_env_utility("build-env", Context.BUILD, args)

View File

@@ -3,16 +3,20 @@
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import argparse
import copy
import glob
import hashlib
import json
import multiprocessing.pool
import os
import shutil
import sys
import tempfile
from typing import List
import urllib.request
from typing import Dict, List, Optional, Tuple
import llnl.util.tty as tty
import llnl.util.tty.color as clr
from llnl.string import plural
from llnl.util.lang import elide_list
import spack.binary_distribution as bindist
@@ -21,18 +25,37 @@
import spack.config
import spack.environment as ev
import spack.error
import spack.hash_types as ht
import spack.mirror
import spack.oci.oci
import spack.oci.opener
import spack.relocate
import spack.repo
import spack.spec
import spack.stage
import spack.store
import spack.user_environment
import spack.util.crypto
import spack.util.url as url_util
import spack.util.web as web_util
from spack.build_environment import determine_number_of_jobs
from spack.cmd import display_specs
from spack.oci.image import (
Digest,
ImageReference,
default_config,
default_index_tag,
default_manifest,
default_tag,
tag_is_spec,
)
from spack.oci.oci import (
copy_missing_layers_with_retry,
get_manifest_and_config_with_retry,
upload_blob_with_retry,
upload_manifest_with_retry,
)
from spack.spec import Spec, save_dependency_specfiles
from spack.stage import Stage
from spack.util.string import plural
description = "create, download and install binary packages"
section = "packaging"
@@ -58,7 +81,9 @@ def setup_parser(subparser: argparse.ArgumentParser):
push_sign.add_argument(
"--key", "-k", metavar="key", type=str, default=None, help="key for signing"
)
push.add_argument("mirror", type=str, help="mirror name, path, or URL")
push.add_argument(
"mirror", type=arguments.mirror_name_or_url, help="mirror name, path, or URL"
)
push.add_argument(
"--update-index",
"--rebuild-index",
@@ -84,7 +109,10 @@ def setup_parser(subparser: argparse.ArgumentParser):
action="store_true",
help="stop pushing on first failure (default is best effort)",
)
arguments.add_common_arguments(push, ["specs"])
push.add_argument(
"--base-image", default=None, help="specify the base image for the buildcache. "
)
arguments.add_common_arguments(push, ["specs", "jobs"])
push.set_defaults(func=push_fn)
install = subparsers.add_parser("install", help=install_fn.__doc__)
@@ -268,6 +296,21 @@ def _matching_specs(specs: List[Spec]) -> List[Spec]:
return [spack.cmd.disambiguate_spec(s, ev.active_environment(), installed=any) for s in specs]
def _format_spec(spec: Spec) -> str:
return spec.cformat("{name}{@version}{/hash:7}")
def _progress(i: int, total: int):
if total > 1:
digits = len(str(total))
return f"[{i+1:{digits}}/{total}] "
return ""
def _make_pool():
return multiprocessing.pool.Pool(determine_number_of_jobs(parallel=True))
def push_fn(args):
"""create a binary package and push it to a mirror"""
if args.spec_file:
@@ -281,63 +324,80 @@ def push_fn(args):
else:
specs = spack.cmd.require_active_env("buildcache push").all_specs()
mirror = arguments.mirror_name_or_url(args.mirror)
if args.allow_root:
tty.warn(
"The flag `--allow-root` is the default in Spack 0.21, will be removed in Spack 0.22"
)
url = mirror.push_url
# Check if this is an OCI image.
try:
image_ref = spack.oci.oci.image_from_mirror(args.mirror)
except ValueError:
image_ref = None
# For OCI images, we require dependencies to be pushed for now.
if image_ref:
if "dependencies" not in args.things_to_install:
tty.die("Dependencies must be pushed for OCI images.")
if not args.unsigned:
tty.warn(
"Code signing is currently not supported for OCI images. "
"Use --unsigned to silence this warning."
)
# This is a list of installed, non-external specs.
specs = bindist.specs_to_be_packaged(
specs,
root="package" in args.things_to_install,
dependencies="dependencies" in args.things_to_install,
)
url = args.mirror.push_url
# When pushing multiple specs, print the url once ahead of time, as well as how
# many specs are being pushed.
if len(specs) > 1:
tty.info(f"Selected {len(specs)} specs to push to {url}")
skipped = []
failed = []
# tty printing
color = clr.get_color_when()
format_spec = lambda s: s.format("{name}{@version}{/hash:7}", color=color)
total_specs = len(specs)
digits = len(str(total_specs))
# TODO: unify this logic in the future.
if image_ref:
with tempfile.TemporaryDirectory(
dir=spack.stage.get_stage_root()
) as tmpdir, _make_pool() as pool:
skipped = _push_oci(args, image_ref, specs, tmpdir, pool)
else:
skipped = []
for i, spec in enumerate(specs):
try:
bindist.push_or_raise(
spec,
url,
bindist.PushOptions(
force=args.force,
unsigned=args.unsigned,
key=args.key,
regenerate_index=args.update_index,
),
)
for i, spec in enumerate(specs):
try:
bindist.push_or_raise(
spec,
url,
bindist.PushOptions(
force=args.force,
unsigned=args.unsigned,
key=args.key,
regenerate_index=args.update_index,
),
)
if total_specs > 1:
msg = f"[{i+1:{digits}}/{total_specs}] Pushed {format_spec(spec)}"
else:
msg = f"Pushed {format_spec(spec)} to {url}"
msg = f"{_progress(i, len(specs))}Pushed {_format_spec(spec)}"
if len(specs) == 1:
msg += f" to {url}"
tty.info(msg)
tty.info(msg)
except bindist.NoOverwriteException:
skipped.append(_format_spec(spec))
except bindist.NoOverwriteException:
skipped.append(format_spec(spec))
# Catch any other exception unless the fail fast option is set
except Exception as e:
if args.fail_fast or isinstance(e, (bindist.PickKeyException, bindist.NoKeyException)):
raise
failed.append((format_spec(spec), e))
# Catch any other exception unless the fail fast option is set
except Exception as e:
if args.fail_fast or isinstance(
e, (bindist.PickKeyException, bindist.NoKeyException)
):
raise
failed.append((_format_spec(spec), e))
if skipped:
if len(specs) == 1:
@@ -364,6 +424,341 @@ def push_fn(args):
),
)
# Update the index if requested
# TODO: remove update index logic out of bindist; should be once after all specs are pushed
# not once per spec.
if image_ref and len(skipped) < len(specs) and args.update_index:
with tempfile.TemporaryDirectory(
dir=spack.stage.get_stage_root()
) as tmpdir, _make_pool() as pool:
_update_index_oci(image_ref, tmpdir, pool)
def _get_spack_binary_blob(image_ref: ImageReference) -> Optional[spack.oci.oci.Blob]:
"""Get the spack tarball layer digests and size if it exists"""
try:
manifest, config = get_manifest_and_config_with_retry(image_ref)
return spack.oci.oci.Blob(
compressed_digest=Digest.from_string(manifest["layers"][-1]["digest"]),
uncompressed_digest=Digest.from_string(config["rootfs"]["diff_ids"][-1]),
size=manifest["layers"][-1]["size"],
)
except Exception:
return None
def _push_single_spack_binary_blob(image_ref: ImageReference, spec: spack.spec.Spec, tmpdir: str):
filename = os.path.join(tmpdir, f"{spec.dag_hash()}.tar.gz")
# Create an oci.image.layer aka tarball of the package
compressed_tarfile_checksum, tarfile_checksum = spack.oci.oci.create_tarball(spec, filename)
blob = spack.oci.oci.Blob(
Digest.from_sha256(compressed_tarfile_checksum),
Digest.from_sha256(tarfile_checksum),
os.path.getsize(filename),
)
# Upload the blob
upload_blob_with_retry(image_ref, file=filename, digest=blob.compressed_digest)
# delete the file
os.unlink(filename)
return blob
def _retrieve_env_dict_from_config(config: dict) -> dict:
"""Retrieve the environment variables from the image config file.
Sets a default value for PATH if it is not present.
Args:
config (dict): The image config file.
Returns:
dict: The environment variables.
"""
env = {"PATH": "/bin:/usr/bin"}
if "Env" in config.get("config", {}):
for entry in config["config"]["Env"]:
key, value = entry.split("=", 1)
env[key] = value
return env
def _archspec_to_gooarch(spec: spack.spec.Spec) -> str:
name = spec.target.family.name
name_map = {"aarch64": "arm64", "x86_64": "amd64"}
return name_map.get(name, name)
def _put_manifest(
base_images: Dict[str, Tuple[dict, dict]],
checksums: Dict[str, spack.oci.oci.Blob],
spec: spack.spec.Spec,
image_ref: ImageReference,
tmpdir: str,
):
architecture = _archspec_to_gooarch(spec)
dependencies = list(
reversed(
list(
s
for s in spec.traverse(order="topo", deptype=("link", "run"), root=True)
if not s.external
)
)
)
base_manifest, base_config = base_images[architecture]
env = _retrieve_env_dict_from_config(base_config)
spack.user_environment.environment_modifications_for_specs(spec).apply_modifications(env)
# Create an oci.image.config file
config = copy.deepcopy(base_config)
# Add the diff ids of the dependencies
for s in dependencies:
config["rootfs"]["diff_ids"].append(str(checksums[s.dag_hash()].uncompressed_digest))
# Set the environment variables
config["config"]["Env"] = [f"{k}={v}" for k, v in env.items()]
# From the OCI v1.0 spec:
# > Any extra fields in the Image JSON struct are considered implementation
# > specific and MUST be ignored by any implementations which are unable to
# > interpret them.
# We use this to store the Spack spec, so we can use it to create an index.
spec_dict = spec.to_dict(hash=ht.dag_hash)
spec_dict["buildcache_layout_version"] = 1
spec_dict["binary_cache_checksum"] = {
"hash_algorithm": "sha256",
"hash": checksums[spec.dag_hash()].compressed_digest.digest,
}
config.update(spec_dict)
config_file = os.path.join(tmpdir, f"{spec.dag_hash()}.config.json")
with open(config_file, "w") as f:
json.dump(config, f, separators=(",", ":"))
config_file_checksum = Digest.from_sha256(
spack.util.crypto.checksum(hashlib.sha256, config_file)
)
# Upload the config file
upload_blob_with_retry(image_ref, file=config_file, digest=config_file_checksum)
oci_manifest = {
"mediaType": "application/vnd.oci.image.manifest.v1+json",
"schemaVersion": 2,
"config": {
"mediaType": base_manifest["config"]["mediaType"],
"digest": str(config_file_checksum),
"size": os.path.getsize(config_file),
},
"layers": [
*(layer for layer in base_manifest["layers"]),
*(
{
"mediaType": "application/vnd.oci.image.layer.v1.tar+gzip",
"digest": str(checksums[s.dag_hash()].compressed_digest),
"size": checksums[s.dag_hash()].size,
}
for s in dependencies
),
],
"annotations": {"org.opencontainers.image.description": spec.format()},
}
image_ref_for_spec = image_ref.with_tag(default_tag(spec))
# Finally upload the manifest
upload_manifest_with_retry(image_ref_for_spec, oci_manifest=oci_manifest)
# delete the config file
os.unlink(config_file)
return image_ref_for_spec
def _push_oci(
args,
image_ref: ImageReference,
installed_specs_with_deps: List[Spec],
tmpdir: str,
pool: multiprocessing.pool.Pool,
) -> List[str]:
"""Push specs to an OCI registry
Args:
args: The command line arguments.
image_ref: The image reference.
installed_specs_with_deps: The installed specs to push, excluding externals,
including deps, ordered from roots to leaves.
Returns:
List[str]: The list of skipped specs (already in the buildcache).
"""
# Reverse the order
installed_specs_with_deps = list(reversed(installed_specs_with_deps))
# The base image to use for the package. When not set, we use
# the OCI registry only for storage, and do not use any base image.
base_image_ref: Optional[ImageReference] = (
ImageReference.from_string(args.base_image) if args.base_image else None
)
# Spec dag hash -> blob
checksums: Dict[str, spack.oci.oci.Blob] = {}
# arch -> (manifest, config)
base_images: Dict[str, Tuple[dict, dict]] = {}
# Specs not uploaded because they already exist
skipped = []
if not args.force:
tty.info("Checking for existing specs in the buildcache")
to_be_uploaded = []
tags_to_check = (image_ref.with_tag(default_tag(s)) for s in installed_specs_with_deps)
available_blobs = pool.map(_get_spack_binary_blob, tags_to_check)
for spec, maybe_blob in zip(installed_specs_with_deps, available_blobs):
if maybe_blob is not None:
checksums[spec.dag_hash()] = maybe_blob
skipped.append(_format_spec(spec))
else:
to_be_uploaded.append(spec)
else:
to_be_uploaded = installed_specs_with_deps
if not to_be_uploaded:
return skipped
tty.info(
f"{len(to_be_uploaded)} specs need to be pushed to {image_ref.domain}/{image_ref.name}"
)
# Upload blobs
new_blobs = pool.starmap(
_push_single_spack_binary_blob, ((image_ref, spec, tmpdir) for spec in to_be_uploaded)
)
# And update the spec to blob mapping
for spec, blob in zip(to_be_uploaded, new_blobs):
checksums[spec.dag_hash()] = blob
# Copy base image layers, probably fine to do sequentially.
for spec in to_be_uploaded:
architecture = _archspec_to_gooarch(spec)
# Get base image details, if we don't have them yet
if architecture in base_images:
continue
if base_image_ref is None:
base_images[architecture] = (default_manifest(), default_config(architecture, "linux"))
else:
base_images[architecture] = copy_missing_layers_with_retry(
base_image_ref, image_ref, architecture
)
# Upload manifests
tty.info("Uploading manifests")
pushed_image_ref = pool.starmap(
_put_manifest,
((base_images, checksums, spec, image_ref, tmpdir) for spec in to_be_uploaded),
)
# Print the image names of the top-level specs
for spec, ref in zip(to_be_uploaded, pushed_image_ref):
tty.info(f"Pushed {_format_spec(spec)} to {ref}")
return skipped
def _config_from_tag(image_ref: ImageReference, tag: str) -> Optional[dict]:
# Don't allow recursion here, since Spack itself always uploads
# vnd.oci.image.manifest.v1+json, not vnd.oci.image.index.v1+json
_, config = get_manifest_and_config_with_retry(image_ref.with_tag(tag), tag, recurse=0)
# Do very basic validation: if "spec" is a key in the config, it
# must be a Spec object too.
return config if "spec" in config else None
def _update_index_oci(
image_ref: ImageReference, tmpdir: str, pool: multiprocessing.pool.Pool
) -> None:
response = spack.oci.opener.urlopen(urllib.request.Request(url=image_ref.tags_url()))
spack.oci.opener.ensure_status(response, 200)
tags = json.load(response)["tags"]
# Fetch all image config files in parallel
spec_dicts = pool.starmap(
_config_from_tag, ((image_ref, tag) for tag in tags if tag_is_spec(tag))
)
# Populate the database
db_root_dir = os.path.join(tmpdir, "db_root")
db = bindist.BuildCacheDatabase(db_root_dir)
for spec_dict in spec_dicts:
spec = Spec.from_dict(spec_dict)
db.add(spec, directory_layout=None)
db.mark(spec, "in_buildcache", True)
# Create the index.json file
index_json_path = os.path.join(tmpdir, "index.json")
with open(index_json_path, "w") as f:
db._write_to_file(f)
# Create an empty config.json file
empty_config_json_path = os.path.join(tmpdir, "config.json")
with open(empty_config_json_path, "wb") as f:
f.write(b"{}")
# Upload the index.json file
index_shasum = Digest.from_sha256(spack.util.crypto.checksum(hashlib.sha256, index_json_path))
upload_blob_with_retry(image_ref, file=index_json_path, digest=index_shasum)
# Upload the config.json file
empty_config_digest = Digest.from_sha256(
spack.util.crypto.checksum(hashlib.sha256, empty_config_json_path)
)
upload_blob_with_retry(image_ref, file=empty_config_json_path, digest=empty_config_digest)
# Push a manifest file that references the index.json file as a layer
# Notice that we push this as if it is an image, which it of course is not.
# When the ORAS spec becomes official, we can use that instead of a fake image.
# For now we just use the OCI image spec, so that we don't run into issues with
# automatic garbage collection of blobs that are not referenced by any image manifest.
oci_manifest = {
"mediaType": "application/vnd.oci.image.manifest.v1+json",
"schemaVersion": 2,
# Config is just an empty {} file for now, and irrelevant
"config": {
"mediaType": "application/vnd.oci.image.config.v1+json",
"digest": str(empty_config_digest),
"size": os.path.getsize(empty_config_json_path),
},
# The buildcache index is the only layer, and is not a tarball, we lie here.
"layers": [
{
"mediaType": "application/vnd.oci.image.layer.v1.tar+gzip",
"digest": str(index_shasum),
"size": os.path.getsize(index_json_path),
}
],
}
upload_manifest_with_retry(image_ref.with_tag(default_index_tag), oci_manifest)
def install_fn(args):
"""install from a binary package"""
@@ -414,7 +809,7 @@ def preview_fn(args):
)
def check_fn(args):
def check_fn(args: argparse.Namespace):
"""check specs against remote binary mirror(s) to see if any need to be rebuilt
this command uses the process exit code to indicate its result, specifically, if the
@@ -429,7 +824,7 @@ def check_fn(args):
specs = spack.cmd.parse_specs(args.spec or args.spec_file)
if specs:
specs = _matching_specs(specs, specs)
specs = _matching_specs(specs)
else:
specs = spack.cmd.require_active_env("buildcache check").all_specs()
@@ -522,7 +917,7 @@ def copy_buildcache_file(src_url, dest_url, local_path=None):
local_path = os.path.join(tmpdir, os.path.basename(src_url))
try:
temp_stage = Stage(src_url, path=os.path.dirname(local_path))
temp_stage = spack.stage.Stage(src_url, path=os.path.dirname(local_path))
try:
temp_stage.create()
temp_stage.fetch()
@@ -616,6 +1011,20 @@ def manifest_copy(manifest_file_list):
def update_index(mirror: spack.mirror.Mirror, update_keys=False):
# Special case OCI images for now.
try:
image_ref = spack.oci.oci.image_from_mirror(mirror)
except ValueError:
image_ref = None
if image_ref:
with tempfile.TemporaryDirectory(
dir=spack.stage.get_stage_root()
) as tmpdir, _make_pool() as pool:
_update_index_oci(image_ref, tmpdir, pool)
return
# Otherwise, assume a normal mirror.
url = mirror.push_url
bindist.generate_package_index(url_util.join(url, bindist.build_cache_relative_path()))

View File

@@ -3,10 +3,10 @@
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import argparse
import re
import sys
import llnl.string
import llnl.util.lang
from llnl.util import tty
@@ -15,11 +15,11 @@
import spack.spec
import spack.stage
import spack.util.crypto
import spack.util.web as web_util
from spack.cmd.common import arguments
from spack.package_base import PackageBase, deprecated_version, preferred_version
from spack.util.editor import editor
from spack.util.format import get_version_lines
from spack.util.naming import valid_fully_qualified_module_name
from spack.version import Version
description = "checksum available versions of a package"
@@ -35,30 +35,30 @@ def setup_parser(subparser):
help="don't clean up staging area when command completes",
)
subparser.add_argument(
"-b",
"--batch",
"-b",
action="store_true",
default=False,
help="don't ask which versions to checksum",
)
subparser.add_argument(
"-l",
"--latest",
"-l",
action="store_true",
default=False,
help="checksum the latest available version",
)
subparser.add_argument(
"-p",
"--preferred",
"-p",
action="store_true",
default=False,
help="checksum the known Spack preferred version",
)
modes_parser = subparser.add_mutually_exclusive_group()
modes_parser.add_argument(
"-a",
"--add-to-package",
"-a",
action="store_true",
default=False,
help="add new versions to package",
@@ -66,27 +66,26 @@ def setup_parser(subparser):
modes_parser.add_argument(
"--verify", action="store_true", default=False, help="verify known package checksums"
)
arguments.add_common_arguments(subparser, ["package", "jobs"])
subparser.add_argument("package", help="name or spec (e.g. `cmake` or `cmake@3.18`)")
subparser.add_argument(
"versions", nargs=argparse.REMAINDER, help="versions to generate checksums for"
"versions",
nargs="*",
help="checksum these specific versions (if omitted, Spack searches for remote versions)",
)
arguments.add_common_arguments(subparser, ["jobs"])
subparser.epilog = (
"examples:\n"
" `spack checksum zlib@1.2` autodetects versions 1.2.0 to 1.2.13 from the remote\n"
" `spack checksum zlib 1.2.13` checksums exact version 1.2.13 directly without search\n"
)
def checksum(parser, args):
# Did the user pass 'package@version' string?
if len(args.versions) == 0 and "@" in args.package:
args.versions = [args.package.split("@")[1]]
args.package = args.package.split("@")[0]
# Make sure the user provided a package and not a URL
if not valid_fully_qualified_module_name(args.package):
tty.die("`spack checksum` accepts package names, not URLs.")
spec = spack.spec.Spec(args.package)
# Get the package we're going to generate checksums for
pkg_cls = spack.repo.PATH.get_pkg_class(args.package)
pkg = pkg_cls(spack.spec.Spec(args.package))
pkg = spack.repo.PATH.get_pkg_class(spec.name)(spec)
# Build a list of versions to checksum
versions = [Version(v) for v in args.versions]
# Define placeholder for remote versions.
@@ -128,18 +127,41 @@ def checksum(parser, args):
remote_versions = pkg.fetch_remote_versions(args.jobs)
url_dict = remote_versions
# A spidered URL can differ from the package.py *computed* URL, pointing to different tarballs.
# For example, GitHub release pages sometimes have multiple tarballs with different shasum:
# - releases/download/1.0/<pkg>-1.0.tar.gz (uploaded tarball)
# - archive/refs/tags/1.0.tar.gz (generated tarball)
# We wanna ensure that `spack checksum` and `spack install` ultimately use the same URL, so
# here we check whether the crawled and computed URLs disagree, and if so, prioritize the
# former if that URL exists (just sending a HEAD request that is).
url_changed_for_version = set()
for version, url in url_dict.items():
possible_urls = pkg.all_urls_for_version(version)
if url not in possible_urls:
for possible_url in possible_urls:
if web_util.url_exists(possible_url):
url_dict[version] = possible_url
break
else:
url_changed_for_version.add(version)
if not url_dict:
tty.die(f"Could not find any remote versions for {pkg.name}")
# print an empty line to create a new output section block
print()
elif len(url_dict) > 1 and not args.batch and sys.stdin.isatty():
filtered_url_dict = spack.stage.interactive_version_filter(
url_dict,
pkg.versions,
url_changes=url_changed_for_version,
initial_verion_filter=spec.versions,
)
if not filtered_url_dict:
exit(0)
url_dict = filtered_url_dict
else:
tty.info(f"Found {llnl.string.plural(len(url_dict), 'version')} of {pkg.name}")
version_hashes = spack.stage.get_checksums_for_versions(
url_dict,
pkg.name,
keep_stage=args.keep_stage,
batch=(args.batch or len(versions) > 0 or len(url_dict) == 1),
fetch_options=pkg.fetch_options,
url_dict, pkg.name, keep_stage=args.keep_stage, fetch_options=pkg.fetch_options
)
if args.verify:

View File

@@ -191,6 +191,14 @@ def ci_generate(args):
"""
env = spack.cmd.require_active_env(cmd_name="ci generate")
if args.copy_to:
tty.warn("The flag --copy-to is deprecated and will be removed in Spack 0.23")
if args.buildcache_destination:
tty.warn(
"The flag --buildcache-destination is deprecated and will be removed in Spack 0.23"
)
output_file = args.output_file
copy_yaml_to = args.copy_to
run_optimizer = args.optimize
@@ -264,12 +272,6 @@ def ci_rebuild(args):
if not ci_config:
tty.die("spack ci rebuild requires an env containing ci cfg")
tty.msg(
"SPACK_BUILDCACHE_DESTINATION={0}".format(
os.environ.get("SPACK_BUILDCACHE_DESTINATION", None)
)
)
# Grab the environment variables we need. These either come from the
# pipeline generation step ("spack ci generate"), where they were written
# out as variables, or else provided by GitLab itself.
@@ -277,6 +279,7 @@ def ci_rebuild(args):
job_log_dir = os.environ.get("SPACK_JOB_LOG_DIR")
job_test_dir = os.environ.get("SPACK_JOB_TEST_DIR")
repro_dir = os.environ.get("SPACK_JOB_REPRO_DIR")
# TODO: Remove this in Spack 0.23
local_mirror_dir = os.environ.get("SPACK_LOCAL_MIRROR_DIR")
concrete_env_dir = os.environ.get("SPACK_CONCRETE_ENV_DIR")
ci_pipeline_id = os.environ.get("CI_PIPELINE_ID")
@@ -285,9 +288,12 @@ def ci_rebuild(args):
job_spec_pkg_name = os.environ.get("SPACK_JOB_SPEC_PKG_NAME")
job_spec_dag_hash = os.environ.get("SPACK_JOB_SPEC_DAG_HASH")
spack_pipeline_type = os.environ.get("SPACK_PIPELINE_TYPE")
# TODO: Remove this in Spack 0.23
remote_mirror_override = os.environ.get("SPACK_REMOTE_MIRROR_OVERRIDE")
# TODO: Remove this in Spack 0.23
remote_mirror_url = os.environ.get("SPACK_REMOTE_MIRROR_URL")
spack_ci_stack_name = os.environ.get("SPACK_CI_STACK_NAME")
# TODO: Remove this in Spack 0.23
shared_pr_mirror_url = os.environ.get("SPACK_CI_SHARED_PR_MIRROR_URL")
rebuild_everything = os.environ.get("SPACK_REBUILD_EVERYTHING")
require_signing = os.environ.get("SPACK_REQUIRE_SIGNING")
@@ -344,21 +350,36 @@ def ci_rebuild(args):
full_rebuild = True if rebuild_everything and rebuild_everything.lower() == "true" else False
pipeline_mirrors = spack.mirror.MirrorCollection(binary=True)
deprecated_mirror_config = False
buildcache_destination = None
if "buildcache-destination" in pipeline_mirrors:
buildcache_destination = pipeline_mirrors["buildcache-destination"]
else:
deprecated_mirror_config = True
# TODO: This will be an error in Spack 0.23
# If no override url exists, then just push binary package to the
# normal remote mirror url.
# TODO: Remove in Spack 0.23
buildcache_mirror_url = remote_mirror_override or remote_mirror_url
if buildcache_destination:
buildcache_mirror_url = buildcache_destination.push_url
# Figure out what is our temporary storage mirror: Is it artifacts
# buildcache? Or temporary-storage-url-prefix? In some cases we need to
# force something or pipelines might not have a way to propagate build
# artifacts from upstream to downstream jobs.
# TODO: Remove this in Spack 0.23
pipeline_mirror_url = None
# TODO: Remove this in Spack 0.23
temp_storage_url_prefix = None
if "temporary-storage-url-prefix" in ci_config:
temp_storage_url_prefix = ci_config["temporary-storage-url-prefix"]
pipeline_mirror_url = url_util.join(temp_storage_url_prefix, ci_pipeline_id)
# TODO: Remove this in Spack 0.23
enable_artifacts_mirror = False
if "enable-artifacts-buildcache" in ci_config:
enable_artifacts_mirror = ci_config["enable-artifacts-buildcache"]
@@ -454,12 +475,14 @@ def ci_rebuild(args):
# If we decided there should be a temporary storage mechanism, add that
# mirror now so it's used when we check for a hash match already
# built for this spec.
# TODO: Remove this block in Spack 0.23
if pipeline_mirror_url:
mirror = spack.mirror.Mirror(pipeline_mirror_url, name=spack_ci.TEMP_STORAGE_MIRROR_NAME)
spack.mirror.add(mirror, cfg.default_modify_scope())
pipeline_mirrors.append(pipeline_mirror_url)
# Check configured mirrors for a built spec with a matching hash
# TODO: Remove this block in Spack 0.23
mirrors_to_check = None
if remote_mirror_override:
if spack_pipeline_type == "spack_protected_branch":
@@ -477,7 +500,8 @@ def ci_rebuild(args):
)
pipeline_mirrors.append(remote_mirror_override)
if spack_pipeline_type == "spack_pull_request":
# TODO: Remove this in Spack 0.23
if deprecated_mirror_config and spack_pipeline_type == "spack_pull_request":
if shared_pr_mirror_url != "None":
pipeline_mirrors.append(shared_pr_mirror_url)
@@ -499,6 +523,7 @@ def ci_rebuild(args):
tty.msg("No need to rebuild {0}, found hash match at: ".format(job_spec_pkg_name))
for match in matches:
tty.msg(" {0}".format(match["mirror_url"]))
# TODO: Remove this block in Spack 0.23
if enable_artifacts_mirror:
matching_mirror = matches[0]["mirror_url"]
build_cache_dir = os.path.join(local_mirror_dir, "build_cache")
@@ -513,7 +538,8 @@ def ci_rebuild(args):
# only want to keep the mirror being used by the current pipeline as it's binary
# package destination. This ensures that the when we rebuild everything, we only
# consume binary dependencies built in this pipeline.
if full_rebuild:
# TODO: Remove this in Spack 0.23
if deprecated_mirror_config and full_rebuild:
spack_ci.remove_other_mirrors(pipeline_mirrors, cfg.default_modify_scope())
# No hash match anywhere means we need to rebuild spec
@@ -579,7 +605,9 @@ def ci_rebuild(args):
"SPACK_COLOR=always",
"SPACK_INSTALL_FLAGS={}".format(args_to_string(deps_install_args)),
"-j$(nproc)",
"install-deps/{}".format(job_spec.format("{name}-{version}-{hash}")),
"install-deps/{}".format(
ev.depfile.MakefileSpec(job_spec).safe_format("{name}-{version}-{hash}")
),
],
spack_cmd + ["install"] + root_install_args,
]
@@ -676,21 +704,25 @@ def ci_rebuild(args):
# print out some instructions on how to reproduce this build failure
# outside of the pipeline environment.
if install_exit_code == 0:
if buildcache_mirror_url or pipeline_mirror_url:
for result in spack_ci.create_buildcache(
input_spec=job_spec,
buildcache_mirror_url=buildcache_mirror_url,
pipeline_mirror_url=pipeline_mirror_url,
sign_binaries=spack_ci.can_sign_binaries(),
):
msg = tty.msg if result.success else tty.warn
msg(
"{} {} to {}".format(
"Pushed" if result.success else "Failed to push",
job_spec.format("{name}{@version}{/hash:7}", color=clr.get_color_when()),
result.url,
)
mirror_urls = [buildcache_mirror_url]
# TODO: Remove this block in Spack 0.23
if pipeline_mirror_url:
mirror_urls.append(pipeline_mirror_url)
for result in spack_ci.create_buildcache(
input_spec=job_spec,
destination_mirror_urls=mirror_urls,
sign_binaries=spack_ci.can_sign_binaries(),
):
msg = tty.msg if result.success else tty.warn
msg(
"{} {} to {}".format(
"Pushed" if result.success else "Failed to push",
job_spec.format("{name}{@version}{/hash:7}", color=clr.get_color_when()),
result.url,
)
)
# If this is a develop pipeline, check if the spec that we just built is
# on the broken-specs list. If so, remove it.

View File

@@ -796,7 +796,9 @@ def names(args: Namespace, out: IO) -> None:
commands = copy.copy(spack.cmd.all_commands())
if args.aliases:
commands.extend(spack.main.aliases.keys())
aliases = spack.config.get("config:aliases")
if aliases:
commands.extend(aliases.keys())
colify(commands, output=out)
@@ -812,8 +814,10 @@ def bash(args: Namespace, out: IO) -> None:
parser = spack.main.make_argument_parser()
spack.main.add_all_commands(parser)
aliases = ";".join(f"{key}:{val}" for key, val in spack.main.aliases.items())
out.write(f'SPACK_ALIASES="{aliases}"\n\n')
aliases_config = spack.config.get("config:aliases")
if aliases_config:
aliases = ";".join(f"{key}:{val}" for key, val in aliases_config.items())
out.write(f'SPACK_ALIASES="{aliases}"\n\n')
writer = BashCompletionWriter(parser.prog, out, args.aliases)
writer.write(parser)

View File

@@ -543,7 +543,7 @@ def add_concretizer_args(subparser):
)
def add_s3_connection_args(subparser, add_help):
def add_connection_args(subparser, add_help):
subparser.add_argument(
"--s3-access-key-id", help="ID string to use to connect to this S3 mirror"
)
@@ -559,6 +559,8 @@ def add_s3_connection_args(subparser, add_help):
subparser.add_argument(
"--s3-endpoint-url", help="endpoint URL to use to connect to this S3 mirror"
)
subparser.add_argument("--oci-username", help="username to use to connect to this OCI mirror")
subparser.add_argument("--oci-password", help="password to use to connect to this OCI mirror")
def use_buildcache(cli_arg_value):

View File

@@ -7,7 +7,6 @@
import llnl.util.tty as tty
import spack.build_environment as build_environment
import spack.cmd
import spack.cmd.common.arguments as arguments
import spack.deptypes as dt
@@ -15,7 +14,8 @@
import spack.paths
import spack.spec
import spack.store
from spack import traverse
from spack import build_environment, traverse
from spack.context import Context
from spack.util.environment import dump_environment, pickle_environment
@@ -42,14 +42,14 @@ def setup_parser(subparser):
class AreDepsInstalledVisitor:
def __init__(self, context="build"):
if context not in ("build", "test"):
raise ValueError("context can only be build or test")
if context == "build":
def __init__(self, context: Context = Context.BUILD):
if context == Context.BUILD:
# TODO: run deps shouldn't be required for build env.
self.direct_deps = dt.BUILD | dt.LINK | dt.RUN
else:
elif context == Context.TEST:
self.direct_deps = dt.BUILD | dt.TEST | dt.LINK | dt.RUN
else:
raise ValueError("context can only be Context.BUILD or Context.TEST")
self.has_uninstalled_deps = False
@@ -76,7 +76,7 @@ def neighbors(self, item):
return item.edge.spec.edges_to_dependencies(depflag=depflag)
def emulate_env_utility(cmd_name, context, args):
def emulate_env_utility(cmd_name, context: Context, args):
if not args.spec:
tty.die("spack %s requires a spec." % cmd_name)
@@ -120,7 +120,7 @@ def emulate_env_utility(cmd_name, context, args):
hashes=True,
# This shows more than necessary, but we cannot dynamically change deptypes
# in Spec.tree(...).
deptypes="all" if context == "build" else ("build", "test", "link", "run"),
deptypes="all" if context == Context.BUILD else ("build", "test", "link", "run"),
),
)

View File

@@ -31,6 +31,19 @@ def setup_parser(subparser):
aliases=["add"],
help="search the system for compilers to add to Spack configuration",
)
mixed_toolchain_group = find_parser.add_mutually_exclusive_group()
mixed_toolchain_group.add_argument(
"--mixed-toolchain",
action="store_true",
default=sys.platform == "darwin",
help="Allow mixed toolchains (for example: clang, clang++, gfortran)",
)
mixed_toolchain_group.add_argument(
"--no-mixed-toolchain",
action="store_false",
dest="mixed_toolchain",
help="Do not allow mixed toolchains (for example: clang, clang++, gfortran)",
)
find_parser.add_argument("add_paths", nargs=argparse.REMAINDER)
find_parser.add_argument(
"--scope",
@@ -86,7 +99,9 @@ def compiler_find(args):
# Below scope=None because we want new compilers that don't appear
# in any other configuration.
new_compilers = spack.compilers.find_new_compilers(paths, scope=None)
new_compilers = spack.compilers.find_new_compilers(
paths, scope=None, mixed_toolchain=args.mixed_toolchain
)
if new_compilers:
spack.compilers.add_compilers_to_config(new_compilers, scope=args.scope, init_config=False)
n = len(new_compilers)

View File

@@ -407,7 +407,9 @@ def config_prefer_upstream(args):
pkgs = {}
for spec in pref_specs:
# Collect all the upstream compilers and versions for this package.
pkg = pkgs.get(spec.name, {"version": [], "compiler": []})
pkg = pkgs.get(spec.name, {"version": []})
all = pkgs.get("all", {"compiler": []})
pkgs["all"] = all
pkgs[spec.name] = pkg
# We have no existing variant if this is our first added version.
@@ -418,8 +420,8 @@ def config_prefer_upstream(args):
pkg["version"].append(version)
compiler = str(spec.compiler)
if compiler not in pkg["compiler"]:
pkg["compiler"].append(compiler)
if compiler not in all["compiler"]:
all["compiler"].append(compiler)
# Get and list all the variants that differ from the default.
variants = []

View File

@@ -5,6 +5,7 @@
import os
import re
import sys
import urllib.parse
import llnl.util.tty as tty
@@ -62,6 +63,10 @@ class {class_name}({base_class_name}):
# notify when the package is updated.
# maintainers("github_user1", "github_user2")
# FIXME: Add the SPDX identifier of the project's license below.
# See https://spdx.org/licenses/ for a list.
license("UNKNOWN")
{versions}
{dependencies}
@@ -823,6 +828,11 @@ def get_versions(args, name):
# Find available versions
try:
url_dict = spack.url.find_versions_of_archive(args.url)
if len(url_dict) > 1 and not args.batch and sys.stdin.isatty():
url_dict_filtered = spack.stage.interactive_version_filter(url_dict)
if url_dict_filtered is None:
exit(0)
url_dict = url_dict_filtered
except UndetectableVersionError:
# Use fake versions
tty.warn("Couldn't detect version in: {0}".format(args.url))
@@ -834,11 +844,7 @@ def get_versions(args, name):
url_dict = {version: args.url}
version_hashes = spack.stage.get_checksums_for_versions(
url_dict,
name,
first_stage_function=guesser,
keep_stage=args.keep_stage,
batch=(args.batch or len(url_dict) == 1),
url_dict, name, first_stage_function=guesser, keep_stage=args.keep_stage
)
versions = get_version_lines(version_hashes, url_dict)

View File

@@ -99,10 +99,7 @@ def dev_build(self, args):
spec = specs[0]
if not spack.repo.PATH.exists(spec.name):
tty.die(
"No package for '{0}' was found.".format(spec.name),
" Use `spack create` to create a new package",
)
raise spack.repo.UnknownPackageError(spec.name)
if not spec.versions.concrete_range_as_version:
tty.die(

View File

@@ -43,10 +43,7 @@ def edit_package(name, repo_path, namespace):
if not os.access(path, os.R_OK):
tty.die("Insufficient permissions on '%s'!" % path)
else:
tty.die(
"No package for '{0}' was found.".format(spec.name),
" Use `spack create` to create a new package",
)
raise spack.repo.UnknownPackageError(spec.name)
editor(path)

View File

@@ -5,10 +5,13 @@
import argparse
import os
import shlex
import shutil
import sys
import tempfile
from typing import Optional
import llnl.string as string
import llnl.util.filesystem as fs
import llnl.util.tty as tty
from llnl.util.tty.colify import colify
@@ -28,7 +31,6 @@
import spack.schema.env
import spack.spec
import spack.tengine
import spack.util.string as string
from spack.util.environment import EnvironmentModifications
description = "manage virtual environments"
@@ -96,22 +98,16 @@ def env_activate_setup_parser(subparser):
view_options = subparser.add_mutually_exclusive_group()
view_options.add_argument(
"-v",
"--with-view",
action="store_const",
dest="with_view",
const=True,
default=True,
help="update PATH, etc., with associated view",
"-v",
metavar="name",
help="set runtime environment variables for specific view",
)
view_options.add_argument(
"-V",
"--without-view",
action="store_const",
dest="with_view",
const=False,
default=True,
help="do not update PATH, etc., with associated view",
"-V",
action="store_true",
help="do not set runtime environment variables for any view",
)
subparser.add_argument(
@@ -149,10 +145,13 @@ def create_temp_env_directory():
return tempfile.mkdtemp(prefix="spack-")
def env_activate(args):
if not args.activate_env and not args.dir and not args.temp:
tty.die("spack env activate requires an environment name, directory, or --temp")
def _tty_info(msg):
"""tty.info like function that prints the equivalent printf statement for eval."""
decorated = f'{colorize("@*b{==>}")} {msg}\n'
print(f"printf {shlex.quote(decorated)};")
def env_activate(args):
if not args.shell:
spack.cmd.common.shell_init_instructions(
"spack env activate", " eval `spack env activate {sh_arg} [...]`"
@@ -165,12 +164,25 @@ def env_activate(args):
env_name_or_dir = args.activate_env or args.dir
# When executing `spack env activate` without further arguments, activate
# the default environment. It's created when it doesn't exist yet.
if not env_name_or_dir and not args.temp:
short_name = "default"
if not ev.exists(short_name):
ev.create(short_name)
action = "Created and activated"
else:
action = "Activated"
env_path = ev.root(short_name)
_tty_info(f"{action} default environment in {env_path}")
# Temporary environment
if args.temp:
elif args.temp:
env = create_temp_env_directory()
env_path = os.path.abspath(env)
short_name = os.path.basename(env_path)
ev.create_in_dir(env).write(regenerate=False)
_tty_info(f"Created and activated temporary environment in {env_path}")
# Managed environment
elif ev.exists(env_name_or_dir) and not args.dir:
@@ -197,10 +209,20 @@ def env_activate(args):
# Activate new environment
active_env = ev.Environment(env_path)
# Check if runtime environment variables are requested, and if so, for what view.
view: Optional[str] = None
if args.with_view:
view = args.with_view
if not active_env.has_view(view):
tty.die(f"The environment does not have a view named '{view}'")
elif not args.without_view and active_env.has_view(ev.default_view_name):
view = ev.default_view_name
cmds += spack.environment.shell.activate_header(
env=active_env, shell=args.shell, prompt=env_prompt if args.prompt else None
env=active_env, shell=args.shell, prompt=env_prompt if args.prompt else None, view=view
)
env_mods.extend(spack.environment.shell.activate(env=active_env, add_view=args.with_view))
env_mods.extend(spack.environment.shell.activate(env=active_env, view=view))
cmds += env_mods.shell_modifications(args.shell)
sys.stdout.write(cmds)
@@ -375,28 +397,33 @@ def env_remove(args):
and manifests embedded in repositories should be removed manually.
"""
read_envs = []
bad_envs = []
for env_name in args.rm_env:
env = ev.read(env_name)
read_envs.append(env)
try:
env = ev.read(env_name)
read_envs.append(env)
except (spack.config.ConfigFormatError, ev.SpackEnvironmentConfigError):
bad_envs.append(env_name)
if not args.yes_to_all:
answer = tty.get_yes_or_no(
"Really remove %s %s?"
% (
string.plural(len(args.rm_env), "environment", show_n=False),
string.comma_and(args.rm_env),
),
default=False,
)
environments = string.plural(len(args.rm_env), "environment", show_n=False)
envs = string.comma_and(args.rm_env)
answer = tty.get_yes_or_no(f"Really remove {environments} {envs}?", default=False)
if not answer:
tty.die("Will not remove any environments")
for env in read_envs:
name = env.name
if env.active:
tty.die("Environment %s can't be removed while activated." % env.name)
tty.die(f"Environment {name} can't be removed while activated.")
env.destroy()
tty.msg("Successfully removed environment '%s'" % env.name)
tty.msg(f"Successfully removed environment '{name}'")
for bad_env_name in bad_envs:
shutil.rmtree(
spack.environment.environment.environment_dir_from_name(bad_env_name, exists_ok=True)
)
tty.msg(f"Successfully removed environment '{bad_env_name}'")
#
@@ -543,8 +570,8 @@ def env_update_setup_parser(subparser):
def env_update(args):
manifest_file = ev.manifest_file(args.update_env)
backup_file = manifest_file + ".bkp"
needs_update = not ev.is_latest_format(manifest_file)
needs_update = not ev.is_latest_format(manifest_file)
if not needs_update:
tty.msg('No update needed for the environment "{0}"'.format(args.update_env))
return
@@ -662,18 +689,31 @@ def env_depfile(args):
# Currently only make is supported.
spack.cmd.require_active_env(cmd_name="env depfile")
env = ev.active_environment()
# What things do we build when running make? By default, we build the
# root specs. If specific specs are provided as input, we build those.
filter_specs = spack.cmd.parse_specs(args.specs) if args.specs else None
template = spack.tengine.make_environment().get_template(os.path.join("depfile", "Makefile"))
model = depfile.MakefileModel.from_env(
ev.active_environment(),
env,
filter_specs=filter_specs,
pkg_buildcache=depfile.UseBuildCache.from_string(args.use_buildcache[0]),
dep_buildcache=depfile.UseBuildCache.from_string(args.use_buildcache[1]),
make_prefix=args.make_prefix,
jobserver=args.jobserver,
)
# Warn in case we're generating a depfile for an empty environment. We don't automatically
# concretize; the user should do that explicitly. Could be changed in the future if requested.
if model.empty:
if not env.user_specs:
tty.warn("no specs in the environment")
elif filter_specs is not None:
tty.warn("no concrete matching specs found in environment")
else:
tty.warn("environment is not concretized. Run `spack concretize` first")
makefile = template.render(model.to_dict())
# Finally write to stdout/file.

View File

@@ -5,6 +5,7 @@
import argparse
import errno
import os
import re
import sys
from typing import List, Optional
@@ -156,11 +157,20 @@ def packages_to_search_for(
):
result = []
for current_tag in tags:
result.extend(spack.repo.PATH.packages_with_tags(current_tag))
result.extend(spack.repo.PATH.packages_with_tags(current_tag, full=True))
if names:
result = [x for x in result if x in names]
# Match both fully qualified and unqualified
parts = [rf"(^{x}$|[.]{x}$)" for x in names]
select_re = re.compile("|".join(parts))
result = [x for x in result if select_re.search(x)]
if exclude:
result = [x for x in result if x not in exclude]
# Match both fully qualified and unqualified
parts = [rf"(^{x}$|[.]{x}$)" for x in exclude]
select_re = re.compile("|".join(parts))
result = [x for x in result if not select_re.search(x)]
return result

View File

@@ -72,6 +72,10 @@ def variant(s):
return spack.spec.ENABLED_VARIANT_COLOR + s + plain_format
def license(s):
return spack.spec.VERSION_COLOR + s + plain_format
class VariantFormatter:
def __init__(self, variants):
self.variants = variants
@@ -348,6 +352,22 @@ def print_virtuals(pkg):
color.cprint(" None")
def print_licenses(pkg):
"""Output the licenses of the project."""
color.cprint("")
color.cprint(section_title("Licenses: "))
if len(pkg.licenses) == 0:
color.cprint(" None")
else:
pad = padder(pkg.licenses, 4)
for when_spec in pkg.licenses:
license_identifier = pkg.licenses[when_spec]
line = license(" {0}".format(pad(license_identifier))) + color.cescape(when_spec)
color.cprint(line)
def info(parser, args):
spec = spack.spec.Spec(args.package)
pkg_cls = spack.repo.PATH.get_pkg_class(spec.name)
@@ -377,6 +397,7 @@ def info(parser, args):
(args.all or not args.no_dependencies, print_dependencies),
(args.all or args.virtuals, print_virtuals),
(args.all or args.tests, print_tests),
(args.all or True, print_licenses),
]
for print_it, func in sections:
if print_it:

View File

@@ -240,8 +240,7 @@ def default_log_file(spec):
"""Computes the default filename for the log file and creates
the corresponding directory if not present
"""
fmt = "test-{x.name}-{x.version}-{hash}.xml"
basename = fmt.format(x=spec, hash=spec.dag_hash())
basename = spec.format_path("test-{name}-{version}-{hash}.xml")
dirname = fs.os.path.join(spack.paths.reports_path, "junit")
fs.mkdirp(dirname)
return fs.os.path.join(dirname, basename)

View File

@@ -5,6 +5,8 @@
import sys
import llnl.util.tty as tty
import spack.cmd
import spack.cmd.common.arguments as arguments
import spack.cmd.find
@@ -108,16 +110,14 @@ def load(parser, args):
)
return 1
with spack.store.STORE.db.read_transaction():
if "dependencies" in args.things_to_load:
include_roots = "package" in args.things_to_load
specs = [
dep for spec in specs for dep in spec.traverse(root=include_roots, order="post")
]
if args.things_to_load != "package,dependencies":
tty.warn(
"The `--only` flag in spack load is deprecated and will be removed in Spack v0.22"
)
env_mod = spack.util.environment.EnvironmentModifications()
with spack.store.STORE.db.read_transaction():
env_mod = uenv.environment_modifications_for_specs(*specs)
for spec in specs:
env_mod.extend(uenv.environment_modifications_for_spec(spec))
env_mod.prepend_path(uenv.spack_loaded_hashes_var, spec.dag_hash())
cmds = env_mod.shell_modifications(args.shell)

View File

@@ -6,10 +6,11 @@
import posixpath
import sys
from llnl.path import convert_to_posix_path
import spack.paths
import spack.util.executable
from spack.spec import Spec
from spack.util.path import convert_to_posix_path
description = "generate Windows installer"
section = "admin"

View File

@@ -111,7 +111,7 @@ def setup_parser(subparser):
"and source use `--type binary --type source` (default)"
),
)
arguments.add_s3_connection_args(add_parser, False)
arguments.add_connection_args(add_parser, False)
# Remove
remove_parser = sp.add_parser("remove", aliases=["rm"], help=mirror_remove.__doc__)
remove_parser.add_argument("name", help="mnemonic name for mirror", metavar="mirror")
@@ -141,7 +141,7 @@ def setup_parser(subparser):
default=spack.config.default_modify_scope(),
help="configuration scope to modify",
)
arguments.add_s3_connection_args(set_url_parser, False)
arguments.add_connection_args(set_url_parser, False)
# Set
set_parser = sp.add_parser("set", help=mirror_set.__doc__)
@@ -170,7 +170,7 @@ def setup_parser(subparser):
default=spack.config.default_modify_scope(),
help="configuration scope to modify",
)
arguments.add_s3_connection_args(set_parser, False)
arguments.add_connection_args(set_parser, False)
# List
list_parser = sp.add_parser("list", help=mirror_list.__doc__)
@@ -192,6 +192,8 @@ def mirror_add(args):
or args.s3_profile
or args.s3_endpoint_url
or args.type
or args.oci_username
or args.oci_password
):
connection = {"url": args.url}
if args.s3_access_key_id and args.s3_access_key_secret:
@@ -202,6 +204,8 @@ def mirror_add(args):
connection["profile"] = args.s3_profile
if args.s3_endpoint_url:
connection["endpoint_url"] = args.s3_endpoint_url
if args.oci_username and args.oci_password:
connection["access_pair"] = [args.oci_username, args.oci_password]
if args.type:
connection["binary"] = "binary" in args.type
connection["source"] = "source" in args.type
@@ -235,6 +239,8 @@ def _configure_mirror(args):
changes["profile"] = args.s3_profile
if args.s3_endpoint_url:
changes["endpoint_url"] = args.s3_endpoint_url
if args.oci_username and args.oci_password:
changes["access_pair"] = [args.oci_username, args.oci_password]
# argparse cannot distinguish between --binary and --no-binary when same dest :(
# notice that set-url does not have these args, so getattr

View File

@@ -5,6 +5,7 @@
import io
import sys
import llnl.string
import llnl.util.tty as tty
import llnl.util.tty.colify as colify
@@ -24,7 +25,7 @@ def report_tags(category, tags):
if isatty:
num = len(tags)
fmt = "{0} package tag".format(category)
buffer.write("{0}:\n".format(spack.util.string.plural(num, fmt)))
buffer.write("{0}:\n".format(llnl.string.plural(num, fmt)))
if tags:
colify.colify(tags, output=buffer, tty=isatty, indent=4)

View File

@@ -3,6 +3,7 @@
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import spack.cmd.common.env_utility as env_utility
from spack.context import Context
description = (
"run a command in a spec's test environment, or dump its environment to screen or file"
@@ -14,4 +15,4 @@
def test_env(parser, args):
env_utility.emulate_env_utility("test-env", "test", args)
env_utility.emulate_env_utility("test-env", Context.TEST, args)

View File

@@ -23,7 +23,7 @@
# tutorial configuration parameters
tutorial_branch = "releases/v0.20"
tutorial_branch = "releases/v0.21"
tutorial_mirror = "file:///mirror"
tutorial_key = os.path.join(spack.paths.share_path, "keys", "tutorial.pub")

View File

@@ -88,9 +88,8 @@ def unload(parser, args):
)
return 1
env_mod = spack.util.environment.EnvironmentModifications()
env_mod = uenv.environment_modifications_for_specs(*specs).reversed()
for spec in specs:
env_mod.extend(uenv.environment_modifications_for_spec(spec).reversed())
env_mod.remove_path(uenv.spack_loaded_hashes_var, spec.dag_hash())
cmds = env_mod.shell_modifications(args.shell)

View File

@@ -13,6 +13,7 @@
import tempfile
from typing import List, Optional, Sequence
import llnl.path
import llnl.util.lang
import llnl.util.tty as tty
from llnl.util.filesystem import path_contains_subdirectory, paths_containing_libs
@@ -24,7 +25,6 @@
import spack.util.module_cmd
import spack.version
from spack.util.environment import filter_system_paths
from spack.util.path import system_path_filter
__all__ = ["Compiler"]
@@ -160,7 +160,7 @@ def _parse_link_paths(string):
return implicit_link_dirs
@system_path_filter
@llnl.path.system_path_filter
def _parse_non_system_link_dirs(string: str) -> List[str]:
"""Parses link paths out of compiler debug output.

View File

@@ -10,7 +10,7 @@
import itertools
import multiprocessing.pool
import os
from typing import Dict, List
from typing import Dict, List, Optional, Tuple
import archspec.cpu
@@ -21,6 +21,7 @@
import spack.compiler
import spack.config
import spack.error
import spack.operating_systems
import spack.paths
import spack.platforms
import spack.spec
@@ -223,13 +224,16 @@ def all_compiler_specs(scope=None, init_config=True):
]
def find_compilers(path_hints=None):
def find_compilers(
path_hints: Optional[List[str]] = None, *, mixed_toolchain=False
) -> List["spack.compiler.Compiler"]:
"""Return the list of compilers found in the paths given as arguments.
Args:
path_hints (list or None): list of path hints where to look for.
A sensible default based on the ``PATH`` environment variable
will be used if the value is None
path_hints: list of path hints where to look for. A sensible default based on the ``PATH``
environment variable will be used if the value is None
mixed_toolchain: allow mixing compilers from different toolchains if otherwise missing for
a certain language
"""
if path_hints is None:
path_hints = get_path("PATH")
@@ -250,7 +254,7 @@ def find_compilers(path_hints=None):
finally:
tp.close()
def valid_version(item):
def valid_version(item: Tuple[Optional[DetectVersionArgs], Optional[str]]) -> bool:
value, error = item
if error is None:
return True
@@ -262,25 +266,37 @@ def valid_version(item):
pass
return False
def remove_errors(item):
def remove_errors(
item: Tuple[Optional[DetectVersionArgs], Optional[str]]
) -> DetectVersionArgs:
value, _ = item
assert value is not None
return value
return make_compiler_list(map(remove_errors, filter(valid_version, detected_versions)))
return make_compiler_list(
[remove_errors(detected) for detected in detected_versions if valid_version(detected)],
mixed_toolchain=mixed_toolchain,
)
def find_new_compilers(path_hints=None, scope=None):
def find_new_compilers(
path_hints: Optional[List[str]] = None,
scope: Optional[str] = None,
*,
mixed_toolchain: bool = False,
):
"""Same as ``find_compilers`` but return only the compilers that are not
already in compilers.yaml.
Args:
path_hints (list or None): list of path hints where to look for.
A sensible default based on the ``PATH`` environment variable
will be used if the value is None
scope (str): scope to look for a compiler. If None consider the
merged configuration.
path_hints: list of path hints where to look for. A sensible default based on the ``PATH``
environment variable will be used if the value is None
scope: scope to look for a compiler. If None consider the merged configuration.
mixed_toolchain: allow mixing compilers from different toolchains if otherwise missing for
a certain language
"""
compilers = find_compilers(path_hints)
compilers = find_compilers(path_hints, mixed_toolchain=mixed_toolchain)
return select_new_compilers(compilers, scope)
@@ -638,7 +654,9 @@ def all_compiler_types():
)
def arguments_to_detect_version_fn(operating_system, paths):
def arguments_to_detect_version_fn(
operating_system: spack.operating_systems.OperatingSystem, paths: List[str]
) -> List[DetectVersionArgs]:
"""Returns a list of DetectVersionArgs tuples to be used in a
corresponding function to detect compiler versions.
@@ -646,8 +664,7 @@ def arguments_to_detect_version_fn(operating_system, paths):
function by providing a method called with the same name.
Args:
operating_system (spack.operating_systems.OperatingSystem): the operating system
on which we are looking for compilers
operating_system: the operating system on which we are looking for compilers
paths: paths to search for compilers
Returns:
@@ -656,10 +673,10 @@ def arguments_to_detect_version_fn(operating_system, paths):
compilers in this OS.
"""
def _default(search_paths):
command_arguments = []
def _default(search_paths: List[str]) -> List[DetectVersionArgs]:
command_arguments: List[DetectVersionArgs] = []
files_to_be_tested = fs.files_in(*search_paths)
for compiler_name in spack.compilers.supported_compilers_for_host_platform():
for compiler_name in supported_compilers_for_host_platform():
compiler_cls = class_for_compiler_name(compiler_name)
for language in ("cc", "cxx", "f77", "fc"):
@@ -684,7 +701,9 @@ def _default(search_paths):
return fn(paths)
def detect_version(detect_version_args):
def detect_version(
detect_version_args: DetectVersionArgs,
) -> Tuple[Optional[DetectVersionArgs], Optional[str]]:
"""Computes the version of a compiler and adds it to the information
passed as input.
@@ -693,8 +712,7 @@ def detect_version(detect_version_args):
needs to be checked by the code dispatching the calls.
Args:
detect_version_args (DetectVersionArgs): information on the
compiler for which we should detect the version.
detect_version_args: information on the compiler for which we should detect the version.
Returns:
A ``(DetectVersionArgs, error)`` tuple. If ``error`` is ``None`` the
@@ -710,7 +728,7 @@ def _default(fn_args):
path = fn_args.path
# Get compiler names and the callback to detect their versions
callback = getattr(compiler_cls, "{0}_version".format(language))
callback = getattr(compiler_cls, f"{language}_version")
try:
version = callback(path)
@@ -736,13 +754,15 @@ def _default(fn_args):
return fn(detect_version_args)
def make_compiler_list(detected_versions):
def make_compiler_list(
detected_versions: List[DetectVersionArgs], mixed_toolchain: bool = False
) -> List["spack.compiler.Compiler"]:
"""Process a list of detected versions and turn them into a list of
compiler specs.
Args:
detected_versions (list): list of DetectVersionArgs containing a
valid version
detected_versions: list of DetectVersionArgs containing a valid version
mixed_toolchain: allow mixing compilers from different toolchains if langauge is missing
Returns:
list: list of Compiler objects
@@ -751,7 +771,7 @@ def make_compiler_list(detected_versions):
sorted_compilers = sorted(detected_versions, key=group_fn)
# Gather items in a dictionary by the id, name variation and language
compilers_d = {}
compilers_d: Dict[CompilerID, Dict[NameVariation, dict]] = {}
for sort_key, group in itertools.groupby(sorted_compilers, key=group_fn):
compiler_id, name_variation, language = sort_key
by_compiler_id = compilers_d.setdefault(compiler_id, {})
@@ -760,7 +780,7 @@ def make_compiler_list(detected_versions):
def _default_make_compilers(cmp_id, paths):
operating_system, compiler_name, version = cmp_id
compiler_cls = spack.compilers.class_for_compiler_name(compiler_name)
compiler_cls = class_for_compiler_name(compiler_name)
spec = spack.spec.CompilerSpec(compiler_cls.name, f"={version}")
paths = [paths.get(x, None) for x in ("cc", "cxx", "f77", "fc")]
# TODO: johnwparent - revist the following line as per discussion at:
@@ -782,13 +802,14 @@ def _default_make_compilers(cmp_id, paths):
getattr(variation, "suffix", None),
)
compilers = []
# Flatten to a list of compiler id, primary variation and compiler dictionary
flat_compilers: List[Tuple[CompilerID, NameVariation, dict]] = []
for compiler_id, by_compiler_id in compilers_d.items():
ordered = sorted(by_compiler_id, key=sort_fn)
selected_variation = ordered[0]
selected = by_compiler_id[selected_variation]
# fill any missing parts from subsequent entries
# Fill any missing parts from subsequent entries (without mixing toolchains)
for lang in ["cxx", "f77", "fc"]:
if lang not in selected:
next_lang = next(
@@ -797,14 +818,63 @@ def _default_make_compilers(cmp_id, paths):
if next_lang:
selected[lang] = next_lang
operating_system, _, _ = compiler_id
make_compilers = getattr(operating_system, "make_compilers", _default_make_compilers)
flat_compilers.append((compiler_id, selected_variation, selected))
compilers.extend(make_compilers(compiler_id, selected))
# Next, fill out the blanks of missing compilers by creating a mixed toolchain (if requested)
if mixed_toolchain:
make_mixed_toolchain(flat_compilers)
# Finally, create the compiler list
compilers = []
for compiler_id, _, compiler in flat_compilers:
make_compilers = getattr(compiler_id.os, "make_compilers", _default_make_compilers)
compilers.extend(make_compilers(compiler_id, compiler))
return compilers
def make_mixed_toolchain(compilers: List[Tuple[CompilerID, NameVariation, dict]]) -> None:
"""Add missing compilers across toolchains when they are missing for a particular language.
This currently only adds the most sensible gfortran to (apple)-clang if it doesn't have a
fortran compiler (no flang)."""
# First collect the clangs that are missing a fortran compiler
clangs_without_flang = [
(id, variation, compiler)
for id, variation, compiler in compilers
if id.compiler_name in ("clang", "apple-clang")
and "f77" not in compiler
and "fc" not in compiler
]
if not clangs_without_flang:
return
# Filter on GCCs with fortran compiler
gccs_with_fortran = [
(id, variation, compiler)
for id, variation, compiler in compilers
if id.compiler_name == "gcc" and "f77" in compiler and "fc" in compiler
]
# Sort these GCCs by "best variation" (no prefix / suffix first)
gccs_with_fortran.sort(
key=lambda x: (getattr(x[1], "prefix", None), getattr(x[1], "suffix", None))
)
# Attach the optimal GCC fortran compiler to the clangs that don't have one
for clang_id, _, clang_compiler in clangs_without_flang:
gcc_compiler = next(
(gcc[2] for gcc in gccs_with_fortran if gcc[0].os == clang_id.os), None
)
if not gcc_compiler:
continue
# Update the fc / f77 entries
clang_compiler["f77"] = gcc_compiler["f77"]
clang_compiler["fc"] = gcc_compiler["fc"]
def is_mixed_toolchain(compiler):
"""Returns True if the current compiler is a mixed toolchain,
False otherwise.

View File

@@ -5,7 +5,6 @@
import os
import re
import sys
import llnl.util.lang
@@ -112,17 +111,7 @@ def extract_version_from_output(cls, output):
match = re.search(r"AOCC_(\d+)[._](\d+)[._](\d+)", output)
if match:
return ".".join(match.groups())
@classmethod
def fc_version(cls, fortran_compiler):
if sys.platform == "darwin":
return cls.default_version("clang")
return cls.default_version(fortran_compiler)
@classmethod
def f77_version(cls, f77):
return cls.fc_version(f77)
return "unknown"
@property
def stdcxx_libs(self):

View File

@@ -5,7 +5,6 @@
import os
import re
import sys
import llnl.util.lang
@@ -39,10 +38,10 @@ class Clang(Compiler):
cxx_names = ["clang++"]
# Subclasses use possible names of Fortran 77 compiler
f77_names = ["flang", "gfortran", "xlf_r"]
f77_names = ["flang"]
# Subclasses use possible names of Fortran 90 compiler
fc_names = ["flang", "gfortran", "xlf90_r"]
fc_names = ["flang"]
version_argument = "--version"
@@ -182,16 +181,3 @@ def extract_version_from_output(cls, output):
if match:
ver = match.group(match.lastindex)
return ver
@classmethod
def fc_version(cls, fc):
# We could map from gcc/gfortran version to clang version, but on macOS
# we normally mix any version of gfortran with any version of clang.
if sys.platform == "darwin":
return cls.default_version("clang")
else:
return cls.default_version(fc)
@classmethod
def f77_version(cls, f77):
return cls.fc_version(f77)

View File

@@ -155,7 +155,7 @@ def _valid_virtuals_and_externals(self, spec):
),
)
def choose_virtual_or_external(self, spec):
def choose_virtual_or_external(self, spec: spack.spec.Spec):
"""Given a list of candidate virtual and external packages, try to
find one that is most ABI compatible.
"""

View File

@@ -69,6 +69,7 @@
SECTION_SCHEMAS = {
"compilers": spack.schema.compilers.schema,
"concretizer": spack.schema.concretizer.schema,
"definitions": spack.schema.definitions.schema,
"mirrors": spack.schema.mirrors.schema,
"repos": spack.schema.repos.schema,
"packages": spack.schema.packages.schema,
@@ -994,6 +995,7 @@ def read_config_file(filename, schema=None):
key = next(iter(data))
schema = _ALL_SCHEMAS[key]
validate(data, schema)
return data
except StopIteration:

View File

@@ -272,13 +272,6 @@ def _os_pkg_manager(self):
raise spack.error.SpackError(msg)
return os_pkg_manager
@tengine.context_property
def extra_instructions(self):
Extras = namedtuple("Extra", ["build", "final"])
extras = self.container_config.get("extra_instructions", {})
build, final = extras.get("build", None), extras.get("final", None)
return Extras(build=build, final=final)
@tengine.context_property
def labels(self):
return self.container_config.get("labels", {})

View File

@@ -0,0 +1,29 @@
# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
"""This module provides classes used in user and build environment"""
from enum import Enum
class Context(Enum):
"""Enum used to indicate the context in which an environment has to be setup: build,
run or test."""
BUILD = 1
RUN = 2
TEST = 3
def __str__(self):
return ("build", "run", "test")[self.value - 1]
@classmethod
def from_string(cls, s: str):
if s == "build":
return Context.BUILD
elif s == "run":
return Context.RUN
elif s == "test":
return Context.TEST
raise ValueError(f"context should be one of 'build', 'run', 'test', got {s}")

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