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2021-10-04.gitignore needs to be below env and ENV for case-insensitive FSTodd Gamblin1-1/+1
2021-10-04Add 5.2.0 (#26481)haralmha1-0/+1
2021-10-05log4cxx: new version and fix for c++11 (#26480)Martin Pokorny1-1/+8
* Add version 0.12.1 * Add variant to build with C++11 standard build with c++11 standard requires boost threads, and needs explicit setting of CMAKE_CXX_STANDARD
2021-10-04intel-tbb: install pkgconfig file (#23977)KoyamaSohei1-0/+20
* intel-tbb: install pkgconfig file * intel-tbb: install pkgconfig file when @:2021.2.0 * intel-tbb: add blank line * intel-tbb: fix library name to refer * intel-tbb: fix library name to refer again * intel-tbb: use self.prefix.lib.pkgconfig
2021-10-04Stand-alone tests: distinguish NO-TESTS from PASSED (#25880)Tamara Dahlgren2-2/+31
Co-authored-by: Seth R. Johnson <johnsonsr@ornl.gov>
2021-10-04esys-particle: add new package esys-particle (#25338)snehring1-0/+39
* esys-particle: add new package esys-particle * esys-particle: requested changes * esys-particle: placating isort
2021-10-04gcc: apply nvcc patch to more versions (#24295)Daniel Ahlin1-1/+4
Apply to all known affected versions (10.1.0 to 10.3.0 and 11.1.0)
2021-10-04git: new version 2.29.2 (#26478)haralmha1-0/+5
2021-10-04Add new pythia8 variants and fix url_for_version (#26280)iarspider1-30/+75
* Add new pythia8 variants Add proper description to the existing ones * Flake-8 * Flake-8 * Style * Fix Pythia8 recipe * Fix typo in variant description * Update package.py
2021-10-04cppgsl: new version 3.1.0 (#26477)haralmha1-0/+1
2021-10-04py-scikit-learn: add 0.19.2 and 0.22.2.post1 (#26473)Manuela Kuhn1-0/+2
2021-10-04masurca: Fix build with glibc-2.32+ (#26173)snehring1-0/+2
remove sysctl.h which is not used by the build
2021-10-04Avoid replacing symlinked spack.yaml when concretizing an environment (#26428)Pedro Demarchi Gomes2-1/+20
2021-10-04use umpire version 5.0.1:5 (#26451)Pedro Demarchi Gomes1-3/+4
2021-10-04paraview: add v5.10.0-RC1 release (#26291)Vicente Bolea1-0/+1
2021-10-04octave: add support for MKL (#25952)mcuma1-4/+14
2021-10-04grpc: update recipe (#25261)iarspider1-4/+9
1) forward `+shared` to re2 2) add `cxxstd` variant 3) use "more idiomatic" way of setting CMake options
2021-10-04Improve an error message in stage.py (#23737)Andreas Baumbach1-1/+2
2021-10-04cp2k: bugfix for intel oneapi (#26143)Tiziano Müller1-5/+36
2021-10-04arm: added download and better detection (#25460)Oliver Perks1-15/+92
2021-10-04gnupg: Add version 1 (#23798)Harmen Stoppels1-17/+45
From the gnupg.org website: > GnuPG 1.4 is the old, single binary version which still support the > unsafe PGP-2 keys. However, it lacks many modern features and will > receive only important updates. I'm starting to appreciate gpg1 more, because it is relocatable (gng2 has hard-coded paths to gpg-agent and other tools) and it does not require gpg-agent at all.
2021-10-04evtgen: fix mac build and version 2.0.0 with pythia >= 8.304. (#25933)iarspider2-0/+50
2021-10-04py-duecredit: add v0.6.5 (#26465)Manuela Kuhn1-2/+3
2021-10-04py-nibabel: add v2.4.1 (#26462)Manuela Kuhn1-3/+7
2021-10-04podio: remove build_type variant (provided by base package class already) ↵Valentin Volkl1-4/+0
(#26463)
2021-10-04freebayes: Fix running the testsuite and add pkgconfig (#26440)Bernhard Kaindl1-0/+20
freebayes needs the tools of the vcflib it includes to run tests
2021-10-04graph500: added option -fcommon for gcc@10.2 (#25367)Nikolay Simakov1-0/+9
* graph500: added option -fcommon for gcc@10.2:, otherwise failed to build with "multiple definition of `column'" * graph500: moved setting cflag to flag_handler
2021-10-04libunwind: add variants (#26099)iarspider1-10/+44
2021-10-04py-pybids: add v0.9.5 (#26461)Manuela Kuhn1-3/+6
2021-10-04Disable tests on hip for cmake 3.21 (#26460)Harmen Stoppels1-1/+1
2021-10-04py-mne: add new package (#26446)Manuela Kuhn1-0/+27
2021-10-04py-sphinxcontrib-napoleon: add new package (#26457)Manuela Kuhn1-0/+19
2021-10-04py-templateflow: add new package (#26458)Manuela Kuhn1-0/+23
2021-10-04Fix NonVirtualInHierarchyError message format (#26008)Dylan Simon1-1/+1
2021-10-04hdf5: allow implicit functions on apple-clang (#26409)Seth R. Johnson1-7/+7
Work around issues in older hdf5 build and overzealous build flags: ``` >> 1420 /var/folders/j4/fznvdyhx4875h6fhkqjn2kdr4jvyqd/T/9te/spack-stage/spack-stage-hdf5-1.10.4-feyl6tz6hpx5kl7m33avpuacwje2ubul/spack-src/src/H5Odeprec.c:141:8: error: implicit decl aration of function 'H5CX_set_apl' is invalid in C99 [-Werror,-Wimplicit-function-declaration] ```
2021-10-04python: correctly disable ~tkinter when @3.8 (#26365)Seth R. Johnson2-0/+15
The older patch does not apply so the build ends up failing: ``` 1539 In file included from /private/var/folders/fy/x2xtwh1n7fn0_0q2kk29xkv9vvmbqb/T/s3j/spack-stage/spack-stage-python-3.8.11 -6jyb6sxztfs6fw26xdbc3ktmbtut3ypr/spack-src/Modules/_tkinter.c:48: >> 1540 /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/tk.h:86:11: f atal error: 'X11/Xlib.h' file not found 1541 # include <X11/Xlib.h> 1542 ^~~~~~~~~~~~ 1543 1 error generated. ```
2021-10-04Update byacc (#25837)iarspider1-3/+4
Co-authored-by: Bernhard Kaindl <43588962+bernhardkaindl@users.noreply.github.com>
2021-10-04papi: new variants rocm and rocm_smi (#26214)G-Ragghianti1-6/+27
2021-10-04git-annex: add 8.20210804 for amd64 (#26449)Manuela Kuhn1-2/+11
2021-10-04py-pockets: add new package (#26452)Manuela Kuhn1-0/+18
2021-10-04Build ppc64le docker images (#26442)Massimiliano Culpo4-10/+37
* Update archspec * Add ppc64le to docker images
2021-10-04Update Spec.full_hash docstring (#26456)Massimiliano Culpo1-4/+1
The docstring is outdated since #21735 when the build hash has been included in the full hash.
2021-10-04FEniCSx: fix CMake root directory and dependency versions (#26445)Garth N. Wells3-6/+7
2021-10-04py-seaborn: add v0.11.2 (#26447)Manuela Kuhn1-0/+1
2021-10-04py-transforms3d: add new package (#26448)Manuela Kuhn1-0/+17
2021-10-04ocaml: add v4.13.1 (#26453)Joseph Wang1-1/+1
This is needed in order to make it work with glibc-2.34
2021-10-03ArborX: Explicitly set path to Kokkos (#26347)Daniel Arndt1-5/+4
* Explicitly set path to Kokkos for ArborX testing * Improve formatting * Update var/spack/repos/builtin/packages/arborx/package.py Co-authored-by: Seth R. Johnson <johnsonsr@ornl.gov> * Remove blank line Co-authored-by: Seth R. Johnson <johnsonsr@ornl.gov>
2021-10-03source-highlight: add gcc11 patch (#26412)Hector1-1/+6
2021-10-03PICSAR: added support for GCC >10.0 and arm compiler (#24927)Lorién López Villellas1-0/+8
* -fallow-argument-mismatch flag added when compiling with GCC to avoid a compilation error when using a GCC version > 10.0. Co-authored-by: Haz99 <jsalamerosanz@gmail.com> * Filtered every occurrence of "!$OMP SIMD SAFELEN(LVEC2)" when compiling with nvhcp to avoid a compilation error. Co-authored-by: Haz99 <jsalamerosanz@gmail.com> * Line with more than 80 characters split into multiple lines. Co-authored-by: Haz99 <jsalamerosanz@gmail.com>
2021-10-03Fix JSONDecodeError when using compiler modules (#25624)Jordan Galby2-2/+2
When using modules for compiler (and/or external package), if a package's `setup_[dependent_]build_environment` sets `PYTHONHOME`, it can influence the python subprocess executed to gather module information. The error seen was: ``` json.decoder.JSONDecodeError: Expecting value: line 1 column 1 (char 0) ``` But the actual hidden error happened in the `python -c 'import json...'` subprocess, which made it return an empty string as json: ``` ModuleNotFoundError: No module named 'encodings' ``` This fix uses `python -E` to ignore `PYTHONHOME` and `PYTHONPATH`. Should be safe here because the python subprocess code only use packages built-in python. The python subprocess in `environment.py` was also patched to be safe and consistent.
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