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2021-09-29Added OpenJDK 16.0.2 (#26322)Pat Riehecky1-0/+5
2021-09-29py-netcdf4: adds parallel IO support (#26178)MichaelLaufer1-2/+7
2021-09-29Add new package: py-backports-entry-points-selectable (#26329)iarspider1-0/+21
2021-09-29py-dipy: add new package (#26331)Manuela Kuhn1-0/+38
2021-09-29py-imageio-ffmpeg: add 0.4.5, fix installation and import (#26330)Manuela Kuhn1-1/+7
2021-09-29py-pyqt5-sip: add new package (#26325)Manuela Kuhn1-0/+18
2021-09-29krb5: bump version and limit depends_on('openssl') to @1 (#26332)bernhardkaindl1-2/+4
krb5 uses an openssl RSA API which is deprecated in OpenSSL@3.0.0 with an const/non-const mismatch.
2021-09-29py-argcomplete: add 1.12.3 (#26228)Manuela Kuhn1-0/+2
2021-09-29Add ccache 4.4.2. (#26327)Olli Lupton1-0/+1
2021-09-29FFTW: NEON SIMD is float-only (#26321)Axel Huebl1-2/+2
Fix on Apple Mac M1 (aarch64): ``` configure: error: NEON requires single precision ```
2021-09-28itk: add version 5.2.1 (#26307)Ben Darwin1-0/+1
2021-09-28netcdf-c: Update for 4.8.1 and new download site (#26309)Greg Sjaardema1-25/+18
NetCDF-4.8.1 has been released. As discussed in https://github.com/Unidata/netcdf-c/issues/2110 (netcdf-c-4.8.1.tar.gz not on ftp site... #2110), the canonical download site for netCDF releases has been changed and the previous ftp site is no longer available. This PR updates the `url` to point to the new recommended download site and updates the sha256 checksums for the new tar files.
2021-09-28qhull deprecated libqhull.so in 2020.2 (#26304)Gregory Lee1-0/+11
2021-09-28py-pytz: add 2021.1 (#26289)Manuela Kuhn1-0/+1
2021-09-28dire: Fix depends for new pythia version scheme (#26294)iarspider1-1/+3
Pythia version numbering was changed in #26255 from xyyy to x.yyy
2021-09-28wrf-io: added NOAA software maintainers, added openmp variant (#26113)Edward Hartnett1-2/+10
2021-09-28Post 26211 rebase updates (#26246)Tamara Dahlgren1-0/+1
2021-09-28py-scooby: add new package (#26284)Manuela Kuhn1-0/+17
2021-09-28Added OpenJDK 11.0.12_7 (#26299)Diego Alvarez1-0/+5
2021-09-28Update nlohmann-json to 3.10.2 (#26260)iarspider1-0/+8
* Update nlohmann-json * fix testsuite Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2021-09-28Squashfs is a makefilepackage (#26300)Harmen Stoppels1-5/+0
2021-09-28py-anuga: add git main version to support build with python@3.5: (#26248)bernhardkaindl2-11/+60
* py-anuga: add git main version to support build with python@3.5: py-anuga's main branch has been converted to Python-3 recently. * py-triangle: use pypi, py-anuga: Fixed depends and test suite works now
2021-09-28py-tomopy: version bump and master, add new deps, make runtest pass (#26252)bernhardkaindl1-4/+32
Current py-tomopy has many features and dependencies, add them.
2021-09-28py-numba: add 0.54.0 and restrict old dependencies (#26281)Manuela Kuhn1-2/+7
* py-numba: add 0.54.0 and restrict old dependencies * Update var/spack/repos/builtin/packages/py-numba/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-09-28py-xlrd: add 2.0.1 (#26282)Manuela Kuhn1-0/+5
2021-09-28py-appdirs: add 1.4.4 (#26298)Manuela Kuhn1-0/+1
2021-09-28Update Nextflow (#26042)Diego Alvarez1-9/+17
2021-09-28Add OpenSSL 3 (#26097)Harmen Stoppels4-5/+10
* OpenSSL 3.0.0 * Remove openssl constraint in e4s to test 3.0.0 * Restrict openssl * Restrict openssl to @:1 in unifyfs * Revert "Remove openssl constraint in e4s to test 3.0.0" This reverts commit 0f0355609771764280ab1b6a523c80843a4f85d6. * Prefer 1.x
2021-09-28Move detection logic in its own package (#26119)Massimiliano Culpo5-287/+376
The logic to perform detection of already installed packages has been extracted from cmd/external.py and put into the spack.detection package. In this way it can be reused programmatically for other purposes, like bootstrapping. The new implementation accounts for cases where the executables are placed in a subdirectory within <prefix>/bin
2021-09-28libp11: Fix build and add new version (#26135)bernhardkaindl1-1/+3
The build needs `pkgconfig` and `openssl`, `m4` is already added by `autoconf`. Also add the current version of `libp11` to the list of versions. Co-authored-by: Bernhard Kaindl <bernhard.kaindl@ait.ac.at>
2021-09-27py-dataclasses: add 0.8 (#26283)Manuela Kuhn1-0/+1
2021-09-27py-meshio: add 5.0.1 and 4.4.6 (#26285)Manuela Kuhn1-2/+5
2021-09-27py-deprecated: add 1.2.13 and get sources from pypi (#26286)Manuela Kuhn1-2/+3
2021-09-27Use gnuconfig package for config file replacement (#26035)Harmen Stoppels5-44/+357
* Use gnuconfig package for config file replacement Currently the autotools build system tries to pick up config.sub and config.guess files from the system (in /usr/share) on arm and power. This is introduces an implicit system dependency which we can avoid by distributing config.guess and config.sub files in a separate package, such as the new `gnuconfig` package which is very lightweight/text only (unlike automake where we previously pulled these files from as a backup). This PR adds `gnuconfig` as an unconditional build dependency for arm and power archs. In case the user needs a system version of config.sub and config.guess, they are free to mark `gnuconfig` as an external package with the prefix pointing to the directory containing the config files: ```yaml gnuconfig: externals: - spec: gnuconfig@master prefix: /tmp/tmp.ooBlkyAKdw/lol buildable: false ``` Apart from that, this PR gives some better instructions for users when replacing config files goes wrong. * Mock needs this package too now, because autotools adds a depends_on * Add documentation * Make patch_config_files a prop, fix the docs, add integrations tests * Make macOS happy
2021-09-27qhull: use secure github URLS instead of www.qhull.org downloads (#26211)Tamara Dahlgren1-8/+5
2021-09-27py-python-picard: add new package (#26268)Manuela Kuhn1-0/+23
2021-09-27Updated versions for cuDNN and NVSHMEM (#26272)Brian Van Essen2-0/+7
2021-09-27py-torchvision: add v0.10.1 (#26267)Adam J. Stewart1-0/+2
2021-09-27py-llvmlite: add 0.37.0 (#26278)Manuela Kuhn1-4/+7
2021-09-27py-datalad: move datalad wtf test over from py-datalad-metalad (#26274)Manuela Kuhn2-6/+7
* py-datalad: move datalad wtf test over from py-datalad-metalad * Update var/spack/repos/builtin/packages/py-datalad/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-09-27py-numexpr: add 2.7.3 (#26279)Manuela Kuhn1-1/+3
2021-09-27py-tqdm: add 4.62.3 (#26277)Manuela Kuhn1-0/+2
2021-09-27py-nilearn: add 0.8.1 (#26276)Manuela Kuhn1-0/+1
2021-09-27[openloops][vbfnlo] Fix recipes and updated dependencies (#24461)Thomas Madlener3-0/+29
* [vbfnlo] Add doc variant to toggle building of docs * [openloops] Add scons to dependencies Make sure that the build_processes does not accidentally pick up a non-suitable scons version from the underlying system * [openloops] Set OLPYTHON to make sure the right scons is picked * [openloops] Fix Flake8 style complaints
2021-09-27MPICH: Add E4S testsuite stand alone test (#25634)Richarda Butler1-0/+32
2021-09-27mrtrix3: add version 3.0.3 (#25943)Ben Darwin1-0/+2
2021-09-27Update highfive (#26262)iarspider1-6/+11
* Add new versions of highfive * Fix CMake option name
2021-09-27New packages for openCARP (#25909)Marie Houillon4-0/+174
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-09-27source-highlight: allow to build the git master branch (#25947)Melven Roehrig-Zoellner1-0/+9
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-09-27added workaround for rocm/cmake bug in tasmanian (#25949)Miroslav Stoyanov1-0/+4
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