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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
2021-09-28libp11: 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 Stoppels2-0/+123
* 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
2021-09-27added package g2c from NOAAs NCEPLIBS project (#26190)Edward Hartnett1-0/+28
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-09-27sundials package: @:5.7.0 requires hypre@:2.22.0 (#25903)Olivier Cessenat1-9/+10
sundials@:5.7.0 fails to build with hypre@2.22.1
2021-09-27New Package: EcoSLIM (#25975)Steven Smith1-0/+25
Co-authored-by: Steven Smith <Steven Smith> Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-09-27add mantainer to bedops (#26141)jacorvar1-0/+1
2021-09-27spindle: It seems it needs mpi.h to compile, adding depends on mpi. (#26151)bernhardkaindl1-1/+14
Workaround this compile error for gcc by adding -Wno-narrowing for it: spindle_logd.cc:65:76: error: narrowing conversion of '255' from 'int' to 'char' spindle_logd.cc:65:76: error: narrowing conversion of '223' from 'int' to 'char' spindle_logd.cc:65:76: error: narrowing conversion of '191' from 'int' to 'char' spindle 0.8.1 wants to compile tests with mpi.h, newer versions need mpicc, thus add: depends_on("mpi"). Spindle supports the --no-mpi to disable MPI.
2021-09-27added NOAAs UPP package (#26198)Edward Hartnett1-0/+52
2021-09-27py-torch: add v1.9.1 (#26159)Adam J. Stewart1-0/+1
2021-09-27perl: Fix test case bug perl#15544: Don't fail with PATH >1000 chars (#26245)bernhardkaindl1-0/+5
Fix the perl test case bug Perl/perl5#15544 Variable PATH longer than 1000 characters (as is usual with spack) fails a perl test case The fix is: Don't test PATH in testcase perlbug.t Fixes `spack install --test=all` for specs triggering a build and test of perl!
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