This PR will add a new audit, specifically for spack package homepage urls (and eventually
other kinds I suspect) to see if there is an http address that can be changed to https.
Usage is as follows:
```bash
$ spack audit packages-https <package>
```
And in list view:
```bash
$ spack audit list
generic:
Generic checks relying on global variables
configs:
Sanity checks on compilers.yaml
Sanity checks on packages.yaml
packages:
Sanity checks on specs used in directives
packages-https:
Sanity checks on https checks of package urls, etc.
```
I think it would be unwise to include with packages, because when run for all, since we do requests it takes a long time. I also like the idea of more well scoped checks - likely there will be other addresses for http/https within a package that we eventually check. For now, there are two error cases - one is when an https url is tried but there is some SSL error (or other error that means we cannot update to https):
```bash
$ spack audit packages-https zoltan
PKG-HTTPS-DIRECTIVES: 1 issue found
1. Error with attempting https for "zoltan":
<urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: Hostname mismatch, certificate is not valid for 'www.cs.sandia.gov'. (_ssl.c:1125)>
```
This is either not fixable, or could be fixed with a change to the url or (better) contacting the site owners to ask about some certificate or similar.
The second case is when there is an http that needs to be https, which is a huge issue now, but hopefully not after this spack PR.
```bash
$ spack audit packages-https xman
Package "xman" uses http but has a valid https endpoint.
```
And then when a package is fixed:
```bash
$ spack audit packages-https zlib
PKG-HTTPS-DIRECTIVES: 0 issues found.
```
And that's mostly it. :)
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
* py-jupyterhub: add version: 1.4.1
* dont need mako for latest release
* sort dependencies
* notebook isnt used for 1.4.1+
* add dependency on py-jupyter-telemetry; create new package py-jupyter-telemetry
* py-jupyter-telemetry: declare missing dependencies
* py-jupyterhub: need more specific depends_on before less specific
* add py-json-logger; py-jupyter-telemetry: add depends_on for py-json-logger
* Update var/spack/repos/builtin/packages/py-jupyter-telemetry/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* remove py-json-logger erroneously and duplicatively added
* Update var/spack/repos/builtin/packages/py-jupyterhub/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* need py-alembic@1.4: for newest py-jupyterhub
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
By default, figlet looks for fonts in `/usr/local/share/figlet`, and if
it doesn't exist you get `figlet: standard: Unable to open font file`.
This fix changes the default font dir to the one installed in the
install prefix.
some of these are not resolvable in that there is only an http page
available, or a page reported as broken is actually ok, or a page has
an SSL error that does not prevent one from visiting (and no good replacement)
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
* Add intel-tbb-oneapi package that does the cmake configure and build.
Compare too the intel-oneapi-tbb package which only downloads a script that contains prebuilt binaries.
* Rename package intel-tbb-cmake
* Incorporate intel-tbb-cmake into intel-tbb package
This is a direct followup to #13557 which caches additional attributes that were added in #24095 that are expensive to compute. I had to reopen#25556 in another PR to invalidate the GitLab CI cache, but see #25556 for prior discussion.
### Before
```console
$ time spack env activate .
real 2m13.037s
user 1m25.584s
sys 0m43.654s
$ time spack env view regenerate
==> Updating view at /Users/Adam/.spack/.spack-env/view
real 16m3.541s
user 10m28.892s
sys 4m57.816s
$ time spack env deactivate
real 2m30.974s
user 1m38.090s
sys 0m49.781s
```
### After
```console
$ time spack env activate .
real 0m8.937s
user 0m7.323s
sys 0m1.074s
$ time spack env view regenerate
==> Updating view at /Users/Adam/.spack/.spack-env/view
real 2m22.024s
user 1m44.739s
sys 0m30.717s
$ time spack env deactivate
real 0m10.398s
user 0m8.414s
sys 0m1.630s
```
Fixes#25555Fixes#25541
* Speedup environment activation, part 2
* Only query distutils a single time
* Fix KeyError bug
* Make vermin happy
* Manual memoize
* Add comment on cross-compiling
* Use platform-specific include directory
* Fix multiple bugs
* Fix python_inc discrepancy
* Fix import tests
Most of these are perl packages that need to point to the meta docs site,
and then a fair amount of http addresses that need to be https, and then
the rest are usually documentation sites that no longer exist or were
otherwise changes
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
- remove unneeded dependency on blas
- create external-lapack variant
- patch makefile to not build lapack if `+external-lapack`
Also:
- fix homepage link
- set parallel = False
- make references to `spec` consistent
- remove unneeded `build` method
This commit adds a regression test for version selection
with preferences in `packages.yaml`. Before PR 25585 we
used negative weights in a minimization to select the
optimal version. This may lead to situations where a
dependency may make the version score of dependents
"better" if it is preferred in packages.yaml.
samtools needed more constraints for htslib, and abi-dumper was missing pkg-config
on the dependency universal ctags
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
Co-authored-by: vsoch <vsoch@users.noreply.github.com>
By default the number of parellel compiler processes launched by
py-grpcio equals the number of threads. This commit limit it to
spack config build_jobs.
* Provide new version of eospac.
+ Provide version 6.5.0beta.
+ Make version 6.4.2 the default
+ Also increment
* volunteer to be the maintainer (for now).
* Added py-meshio package
* Added setuptools dependency to py-meshio package
* Update var/spack/repos/builtin/packages/py-meshio/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-meshio/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-meshio/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-meshio/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-meshio/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* added missing py-importlib-metadata dependency in py-meshio
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
As of cray-mpich version 8.1.7, conventional MPI compiler wrappers are included in cray-mpich.
Co-authored-by: Luke Roskop <lroskop@cedar.head.cm.us.cray.com>
Add HPDDM, MMG, ParMMG and Tetgen to PETSc.
Add mmg version 5.5.2 (compatible with PETSc).
Add parmmg, depending on mmg.
Add pic variant to tetgen for PETSc.
* Adding a heap of NOAA packages for UFS.
Adding the Unified Forecast System (UFS) and all of the packages
it depends on.
* Fixing style tests.
* Removing the package CMAKE_BUILD_TYPE override.
* Removing compiler specs from `cmake_args()`.
