Replace the filter_file for older configure with rocm 5.3 with an
upstream patch. Further, the patch is no longer needed for develop or
later releases.
Implement an alternative strategy to do index.json invalidation.
The current approach of pairs of index.json / index.json.hash is
problematic because it leads to races.
The standard solution for cache invalidation is etags, which are
supported by both http and s3 protocols, which allows one to do
conditional fetches.
This PR implements that for the http/https schemes. It should also work
for s3 schemes, but that requires other prs to be merged.
Also it improves unit tests for index.json fetches.
* py-scikit-image: add 0.19.3
* Update var/spack/repos/builtin/packages/py-scikit-image/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* LLVM: replace libelf dependency with elf
I didn't test this extensively, but in CMS LLVM builds just fine with elfutils.
* [@spackbot] updating style on behalf of iarspider
Co-authored-by: iarspider <iarspider@users.noreply.github.com>
* exiv2: add new versions
* babl: new package required to build GIMP
* gegl: new package required to build GIMP
* gexiv2: new package required to build GIMP
* libmypaint: new package required to build GIMP
* mypaint-brushes: new package required to build GIMP
* vala: new package required to build GIMP
* GIMP: new package definition for building GIMP-2.10 from source
* libjxl: update for 0.7.0
* libwmf: a library for reading vector images in Windows Metafile Format (WMF)
* libde265: an open source implementation of the h.265 video codec
* libwebp: add new versions
* GIMP: additional variants for building GIMP-2.10 from source
* libde265: remove boilerplate
* fixes for style precheck
* updates based on feedback
* fixes for style precheck
Update the depends_on("perl") to depends_on("perl+threads").
This and #34074 is needed to properly handle e.g. the perl-Thread-Queue
rpm package:
It may not be installed on RedHat-based hosts, which can lead to automake
build failures when `spack external find perl` or `spack external find --all`
was used to use the system-provided perl install.
* nextflow recipe: added latest stable version
* tower-cli recipe: added latest release
* recipes tower-agent and tower-cli renamed to nf-tower-agent and nf-tower-cli
* recipes nf-tower-agent and nf-tower-cli: small fix
* nf-core-tools recipe: added most py- dependencies
* nf-core-tools: recipe without galaxy-tool-util (for testing)
* fixed typos in py-yacman recipe
* fixed typos in py-pytest-workflow recipe
* fixed typo in nf-core-tools recipe
* fixed typos in py-yacman recipe
* fixes in recipes for py-questionary and py-url-normalize
* fixes to py-yacman recipe
* style fixes to py- packages that are dependencies to nf-core-tools
* fix in py-requests-cache recipe
* added missing dep in py-requests-cache recipe
* nf-core-tools deps: removed redundant python dep for py packages oyaml and piper
* nf-core-tools recipe: final, incl dep on py-galaxy-tool-util
* nf-core-tools: new version with extra dependency
* commit to merge packages on focus from update/nextflow-tools
* nf-core: commenting galaxy dep for this pr
* Update var/spack/repos/builtin/packages/py-requests-cache/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-requests-cache/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* removed nf-core-tools from this branch, will be back at the end
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Interim fix for #34559
Spack's MSVC compiler definition uses ifx as the Fortran compiler.
Prior to #33385, the Spack MSVC compiler definition required the
executable to be called "ifx.exe"; #33385 replaced this with just
"ifx", which inadvertently led to ifx falsely indicating the
presence of MSVC on non-Windows systems (which leads to future
errors when attempting to query/use those compiler objects).
This commit applies a short-term fix by updating MSVC Fortran
version detection to always indicate a failure on non-Windows.
