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Author SHA1 Message Date
Dan Lipsa
4648939043 Windows bugfix: path-to-URL conversion (#37827) 
When interpreting local paths as relative URL endpoints, they were
formatted as Windows paths on Windows (i.e. with '\'). URLs should
always be POSIX-style.
 2023-06-13 10:08:09 -07:00
Xavier Delaruelle
746eaaf01a modules: append trailing delimiter to MANPATH when set (#36678) 
Update modulefile templates to append a trailing delimiter to MANPATH
environment variable, if the modulefile sets it.

With a trailing delimiter at ends of MANPATH's value, man will search
the system man pages after searching the specific paths set.

Using append-path/append_path to add this element, the module tool
ensures it is appended only once. When modulefile is unloaded, the
number of append attempt is decreased, thus the trailing delimiter is
removed only if this number equals 0.

Disclaimer: no path element should be appended to MANPATH by generated
modulefiles. It should always be prepended to ensure this variable's
value ends with the trailing delimiter.

Fixes #11355.
 2023-06-13 10:29:11 +02:00
Alberto Sartori
bd2f78ae9a justbuild: bump version 1.1.2 (#38320) 2023-06-12 21:34:38 -04:00
Alec Scott
a4ebe01dec curl: add v8.1.2 (#38332) 2023-06-12 19:34:24 -04:00
Alex Richert
94e9e18558 Update sp package (#38208) 2023-06-12 17:51:57 -04:00
Alec Scott
d2e0ac4d1f cpp-httplib: add v0.12.5 (#38331) 2023-06-12 14:51:11 -07:00
Alec Scott
36321fef1c direnv: add v2.32.3 (#38333) 2023-06-12 14:48:06 -07:00
Alec Scott
e879877878 etcd: add v3.5.9 (#38334) 2023-06-12 14:46:43 -07:00
Alec Scott
f0bce3eb25 fastp: add v0.23.4 (#38335) 2023-06-12 14:45:45 -07:00
Wouter Deconinck
316bfd8b7d opencascade: new variants (#35345) 
* opencascade: new variants

OpenCascade has several major modules and not every
application needs all of them. This adds variants for
the various modules.

It also uodatws the 3rdparty dependency treatment.

* [@spackbot] updating style on behalf of wdconinc

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

* opencascade: remove variant foundation_classes (always true)

* [@spackbot] updating style on behalf of wdconinc

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

---------

Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
 2023-06-12 11:56:55 -05:00
Jerome Soumagne
92593fecd5 mercury: add v2.3.0 (#38279) 
* fix Boost dependency

* fix testing and move psm2/sockets as unsupported

* fix style to separate maintainers/tags/version
 2023-06-12 08:51:22 -07:00
MatthewLieber
8db5fecdf5 mvapich2: add hwloc_graphics variant (#38028) 
Co-authored-by: Matthew Lieber <lieber.31@osu.edu>
 2023-06-12 17:25:10 +02:00
Niclas Jansson
eee696f320 neko: add v0.6.0 and fixed rocm package recipe (#38024) 2023-06-12 17:17:12 +02:00
willdunklin
8689cf392f mochi-margo: correct patch versions (#38087) 2023-06-12 17:13:52 +02:00
Bruno Turcksin
15d4cce2eb Add new Kokkos release (#38049) 2023-06-12 17:08:51 +02:00
Peter Scheibel
45fbb82d1a pip is a pythonextension not a pythonpackage, and it turns out we werent doing our external surgery on things that inherited pythonextension (#38186) 2023-06-12 17:07:28 +02:00
Adam J. Stewart
2861c89b89 Deprecate R packages for spatial analysis (#38158) 
* Deprecate R packages for spatial analysis

* [@spackbot] updating style on behalf of adamjstewart

---------

Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>
 2023-06-12 15:55:40 +02:00
Alec Scott
135bfeeb27 libtlx: add v0.6.1 (#38134) 2023-06-12 15:54:50 +02:00
Alec Scott
8fa9c66a7d ccache: add v4.8.1 (#38114) 2023-06-12 15:54:27 +02:00
snehring
5e6174cbe2 cdhit: add missing perl dep, patch shebangs (#38179) 2023-06-12 15:51:59 +02:00
MichaelLaufer
b4ad883b0d wrf: add v4.5.0 (#37618) 2023-06-12 15:48:54 +02:00
Juan Miguel Carceller
a681111a23 whizard: add tirpc/lib to the link flags (#38050) 
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
 2023-06-12 15:24:27 +02:00
Manuela Kuhn
d2436afb66 gdb: fix debuginfod for version 10 (#38058) 2023-06-12 15:20:45 +02:00
Martin Pokorny
e43444cbb6 kokkos: fix c++20 constraint (#37555) 2023-06-12 15:07:03 +02:00
nkgh77
8c0d947114 FrontISTR: relax the requirement on Trillinos (#38321) 2023-06-12 15:02:21 +02:00
Thomas Madlener
5ba4a2b83a podio: bump minimal version of catch2 (#38255) 2023-06-12 08:47:48 -04:00
Harmen Stoppels
da45073ef9 buildcache: remove deprecated api (#37246) 
The API was deprecated in v0.20 and is slated for removal in v0.21
 2023-06-12 14:33:26 +02:00
kwryankrattiger
61e17fb36d DaV: Use VTKm for all build configurations of ParaView (#38184) 2023-06-12 14:25:50 +02:00
Wouter Deconinck
9f13a90dd2 superlu: new version 6.0.0 (#38262) 
No changes to build system required. Changelog: https://github.com/xiaoyeli/superlu/compare/v5.3.0...v6.0.0

Since this new version adds "64-bit indexing support", and since at least one dependent package (`armadillo`) requires "32-bit integers" (faa6cbf895), the previous version remains preferred.

* [@spackbot] updating style on behalf of wdconinc

---------

Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
 2023-06-12 14:23:42 +02:00
Juan Miguel Carceller
ef4b35ea63 gaudi: remove the py-qmtest dependency (#38274) 
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
 2023-06-12 14:22:21 +02:00
George Young
66187c8a6e orthofinder: add 2.5.5, add variants (#38298) 
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
 2023-06-12 14:13:15 +02:00
Massimiliano Culpo
c8d95512fc bootstrap: add minimum versions required for flake8 and pytest (#38322) 2023-06-12 12:29:35 +02:00
George Young
c74fa648b9 fastq-screen: add 0.15.3, add variants (#38288) 
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
 2023-06-12 10:37:51 +02:00
snehring
4cc5e9cac6 ltr-retriever 2.9.4 (#38300) 2023-06-12 10:05:44 +02:00
snehring
41345d18f9 perl-libwww-perl: adding perl-clone dependency (#38301) 2023-06-12 10:04:29 +02:00
Alec Scott
0dd1316b68 alglib: add v4.00.0 (#38313) 2023-06-12 09:46:24 +02:00
Alec Scott
d8cc185e22 bismark: add v0.24.1 (#38315) 2023-06-12 09:45:53 +02:00
Alec Scott
061051270c blogbench: add v1.2 (#38316) 2023-06-12 09:45:42 +02:00
Alec Scott
61445159db consul: add v1.15.3 (#38317) 2023-06-12 09:45:30 +02:00
Christopher Christofi
7fa3c7f0fa Fix typo in example code block (#38318) 2023-06-11 22:12:36 -04:00
Manuela Kuhn
9c0fe30f42 py-mypy: add 1.3.0 (#38286) 
* py-mypy: add 1.3.0

* Remove redundant py-typed-ast dependency

* Read python@3.7 dep
 2023-06-11 15:22:55 -04:00
George Young
d00010819f py-deeptools: add 3.5.2, update dependency versions (#38287) 
* py-deeptools: add 3.5.2, update dependency versions

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

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

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

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

* Rearranging dependencies to match setup.py

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
 2023-06-11 15:17:52 -04:00
Manuela Kuhn
248b05b32a py-jedi: add 0.18.2 (#38177) 
* py-jedi: add 0.18.2

* Add setuptools as run dependency
 2023-06-11 15:12:56 -04:00
dependabot[bot]
8232e934e9 build(deps): bump docker/login-action from 2.1.0 to 2.2.0 (#38241) 
Bumps [docker/login-action](https://github.com/docker/login-action) from 2.1.0 to 2.2.0.
- [Release notes](https://github.com/docker/login-action/releases)
- [Commits](f4ef78c080...465a07811f)

---
updated-dependencies:
- dependency-name: docker/login-action
  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>
 2023-06-11 13:36:31 -05:00
dependabot[bot]
9d005839af build(deps): bump docker/setup-buildx-action from 2.5.0 to 2.6.0 (#38242) 
Bumps [docker/setup-buildx-action](https://github.com/docker/setup-buildx-action) from 2.5.0 to 2.6.0.
- [Release notes](https://github.com/docker/setup-buildx-action/releases)
- [Commits](4b4e9c3e2d...6a58db7e0d)

---
updated-dependencies:
- dependency-name: docker/setup-buildx-action
  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>
 2023-06-11 13:36:02 -05:00
dependabot[bot]
a7e5c73608 build(deps): bump docker/setup-qemu-action from 2.1.0 to 2.2.0 (#38243) 
Bumps [docker/setup-qemu-action](https://github.com/docker/setup-qemu-action) from 2.1.0 to 2.2.0.
- [Release notes](https://github.com/docker/setup-qemu-action/releases)
- [Commits](e81a89b173...2b82ce82d5)

---
updated-dependencies:
- dependency-name: docker/setup-qemu-action
  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>
 2023-06-11 13:35:42 -05:00
dependabot[bot]
7896625919 build(deps): bump urllib3 from 2.0.2 to 2.0.3 in /lib/spack/docs (#38244) 
Bumps [urllib3](https://github.com/urllib3/urllib3) from 2.0.2 to 2.0.3.
- [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/2.0.2...2.0.3)

---
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>
 2023-06-11 13:35:22 -05:00
dependabot[bot]
fb43cb8166 build(deps): bump sphinx-rtd-theme in /lib/spack/docs (#38245) 
Bumps [sphinx-rtd-theme](https://github.com/readthedocs/sphinx_rtd_theme) from 1.2.1 to 1.2.2.
- [Changelog](https://github.com/readthedocs/sphinx_rtd_theme/blob/master/docs/changelog.rst)
- [Commits](https://github.com/readthedocs/sphinx_rtd_theme/compare/1.2.1...1.2.2)

---
updated-dependencies:
- dependency-name: sphinx-rtd-theme
  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>
 2023-06-11 13:35:03 -05:00
dependabot[bot]
28f68e5d11 build(deps): bump docker/build-push-action from 4.0.0 to 4.1.0 (#38306) 
Bumps [docker/build-push-action](https://github.com/docker/build-push-action) from 4.0.0 to 4.1.0.
- [Release notes](https://github.com/docker/build-push-action/releases)
- [Commits](3b5e8027fc...44ea916f6c)

---
updated-dependencies:
- dependency-name: docker/build-push-action
  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>
 2023-06-11 13:34:44 -05:00
dependabot[bot]
1199eeed0b build(deps): bump docker/build-push-action from 4.0.0 to 4.1.0 (#38306) 
Bumps [docker/build-push-action](https://github.com/docker/build-push-action) from 4.0.0 to 4.1.0.
- [Release notes](https://github.com/docker/build-push-action/releases)
- [Commits](3b5e8027fc...44ea916f6c)

---
updated-dependencies:
- dependency-name: docker/build-push-action
  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>
 2023-06-11 13:34:33 -05:00