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2023-08-03R: fix build on macOS arm64 (#39228)Adam J. Stewart1-0/+2
2023-08-03ucsc-bedclip: add package (#39209)pabloaledo3-0/+81
Signed-off-by: Pablo <pablo.aledo@seqera.io>
2023-08-03py-kornia: add v0.7.0 (#39233)Adam J. Stewart1-0/+2
2023-08-02nextdenovo: new package @2.5.2 (and py-paralleltask) (#39139)George Young2-0/+49
* py-paralleltask: new package @0.2.2 * adding hidden dependency * nextdenovo: new package @2.5.2 * style * Update var/spack/repos/builtin/packages/py-paralleltask/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-08-02py-melissa-core: add new versions and py-iterative-stats dependency (#38654)mschouler1-4/+13
* py-melissa-core: add new versions and py-iterative-stats dependency * Enhance dependency specification * Fix dependency specification * Fix comment alignment * Improve dependency specification style * Enhance dependencies * Fix mpi4py, py-cloudpickle and py-python-hostlist dependencies * Update var/spack/repos/builtin/packages/py-melissa-core/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-melissa-core/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-melissa-core/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Set develop version as preferred * Update var/spack/repos/builtin/packages/py-melissa-core/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: Marc Schouler <marc.schouler@inria.fr> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-08-02py-libEnsemble: add v0.10.2 (#39074)Stephen Hudson1-2/+4
* libEnsemble: add v0.10.2 * Make setuptools build only dep * Update var/spack/repos/builtin/packages/py-libensemble/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-08-02Add qmake virtual provider (#38848)Adam J. Stewart2-0/+4
2023-08-02openmolcas: adding version 23.06 (#39195)snehring1-0/+1
2023-08-02bioconductor-dupradar, bioconductor-rsubread: add packages (#39206)pabloaledo2-0/+41
* bioconductor-dupradar, bioconductor-rsubread: add packages * [@spackbot] updating style on behalf of pabloaledo
2023-08-02tximeta: add package (#39207)pabloaledo1-0/+39
* tximeta: add package Signed-off-by: Pablo <pablo.aledo@seqera.io> * [@spackbot] updating style on behalf of pabloaledo --------- Signed-off-by: Pablo <pablo.aledo@seqera.io>
2023-08-02patchelf: 0.18 (#39215)Harmen Stoppels1-0/+1
2023-08-02rust: disable build from downloading a version of LLVM from Rust CI (#39146)Alec Scott1-0/+3
2023-08-02Python: fix library/header error msg format (#39171)Adam J. Stewart1-4/+4
2023-08-01dcmtk: new version and pic configuration (#39161)Martin Aumüller1-8/+15
* dcmtk: checksum 3.6.7 compiles on macos * dcmtk: support pic configuration * [@spackbot] updating style on behalf of aumuell * dcmtk: use define_from_variant for shorter code * dcmtk: refine conflict it appears that dcmtk < 3.6.7 only fails on macos/aarch64: /Library/Developer/CommandLineTools/usr/lib/clang/14.0.3/include/xmmintrin.h:14:2: error: "This header is only meant to be used on x86 and x64 architecture" --------- Co-authored-by: aumuell <aumuell@users.noreply.github.com>
2023-08-01py-gevent: add 23.7.0 and py-greenlet: add 3.0.0a1 (#39164)Manuela Kuhn2-9/+18
* py-gevent: add 23.7.0 and py-greenlet: add 3.0.0a1 * Update var/spack/repos/builtin/packages/py-gevent/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Remove version 1.3.a2 --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-08-01py-openai, py-pandas-stubs (#38912)sid4-9/+109
* simple build of py-openai * added variants to py-openai * py-pandas-stubs is a dependency for py-openai * fixed format and flake8 errors for py-openai * black format error for py-pandas-stubs * [@spackbot] updating style on behalf of sidpbury * made style and format changes to py-openai * made style and format changes to py-pandas-stubs * py-types-pytz is a dependency for py-openai * [@spackbot] updating style on behalf of sidpbury * updated py-openpyxl for ver 3.0.7 and 3.1.2 * Update var/spack/repos/builtin/packages/py-pandas-stubs/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * ajs requested changes for py-openai * updated py-openpyxl for supported python * [@spackbot] updating style on behalf of sidpbury * updated py-openpyxl * removed requirement.txt dependencies in py-openpyxl * removed python depends on from openpyxl --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-08-01Add two latest versions (#39182)mschouler1-0/+2
Co-authored-by: Marc Schouler <marc.schouler@inria.fr>
2023-08-01amrex: add 23.08 (#39190)Weiqun Zhang1-0/+1
2023-08-01Mongodb: Add new package (#39085)Dax Lynch2-0/+142
* Added the package * added dependency * Update package.py * Update package.py Added xz as a dependency
2023-08-01Fix source bootstrapping for Debian and derivatives (#39107)vucoda1-1/+15
* Fix Python package.py for Debian and derivatives to find the system Python library location When bootstrapping from source, find_library() does not contain any paths that work for Debian and derivatives. fixes #36666 * Update to pass styling * Update to styling * Update python package.py with fake config value for LIBPL * Update python package.py libpl config_vars entry to follow double quote standard * styling update
2023-07-31petsc, py-petsc4py: add v3.19.4 (#39169)Satish Balay2-0/+2
2023-07-31qt-base: add conflict for 6.5+ with GCC < 9 (#39158)Martin Aumüller1-0/+3
2023-07-31py-numpy: add v1.25.2 (#39172)Adam J. Stewart1-0/+1
2023-07-31update py-cupy to enable ROCm builds and add variant to control optional ↵eugeneswalker3-15/+125
dependencies (#38919) * py-cupy updates: add +rocm and +all * rocm deps are link only * set parallelism for both +rocm and +cuda * add missing deps; remove unnecessary deps; uncomment maintainers; get hipcc properly
2023-07-31py-terminado: add 0.17.1 (#39165)Manuela Kuhn1-8/+13
* py-terminado: add 0.17.1 * Fix style * Update var/spack/repos/builtin/packages/py-terminado/package.py Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> --------- Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-07-31added new packages (#39166)Andrey Perestoronin1-0/+11
2023-07-31libtiff: 4.5.1 (#39159)Martin Aumüller1-0/+1
2023-07-31libgeotiff: new versions (#39160)Martin Aumüller1-0/+2
2023-07-31py-rdflib: add 6.3.2 (#39065)Manuela Kuhn1-3/+10
* py-rdflib: add 6.3.2 * Update var/spack/repos/builtin/packages/py-rdflib/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Remove python dependency --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-07-31py-python-hostlist: package addition (#39035)mschouler1-0/+20
* Add recipe for py-hostlist * Fix style * Fix style * Add homepage, fix version url and remove unnecessary dependency * Fix version and remove url * Rename package and fix git link --------- Co-authored-by: Marc Schouler <marc.schouler@inria.fr>
2023-07-31fzf: add v0.42.0 (#39150)Alec Scott1-0/+1
2023-07-31py-lightning: add v2.0.6 (#39152)Adam J. Stewart1-1/+3
2023-07-31py-sphinx: add v7.1 (#39151)Adam J. Stewart1-3/+14
2023-07-31libjpeg-turbo: checksum 2.1.5.1 & 3.0.0 (#39157)Martin Aumüller1-0/+2
2023-07-30py-lightly: add v1.4.14 (#39153)Adam J. Stewart1-0/+1
2023-07-30py-chex: add 0.1.5 (#39102)Christopher Christofi1-0/+1
2023-07-30py-csvkit: add 1.1.1 (#39124)Manuela Kuhn1-10/+15
2023-07-30sourmash: new package @4.8.2 (#38571)George Young5-4/+84
* sourmash: new package @4.8.2 * sourmash: new package @4.8.2 * py-bitarray: add 2.7.6, 2.7.4 * Update var/spack/repos/builtin/packages/py-bitstring/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update setuptools dependency * Adding missing deps * Update var/spack/repos/builtin/packages/sourmash/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Correcting maturin dep Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/sourmash/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/sourmash/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/sourmash/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Adding dependency types * Add `@0.14.17` as the last pre-`@1:` release * Switch to use `python_platlib` * Update package.py * Update var/spack/repos/builtin/packages/py-screed/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-07-30PyPy: add new package (#38999)Adam J. Stewart2-0/+234
* PyPy: add new package * Typo fix Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> --------- Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-07-30py-pytest-html: Add version 3.2.0 (#38989)Jordan Galby1-2/+20
* py-pytest-html: add 3.2.0 * py-pytest-html: Add py-py version requirement See https://github.com/pytest-dev/pytest-html/blob/v3.2.0/setup.py#L16 * py-pytest-html: Add dependencies from setup.py and pyproject.toml * py-pytest-html: Add git url * py-pytest-html: Add conflict with py-pytest@7.2: pending py-pytest-html@4
2023-07-29Bugfix/ltrace: Add missing elf dependency (#39143)Tamara Dahlgren1-0/+2
2023-07-28Adding NVIDIA HPC SDK 23.7 (#39127)Filippo Spiga1-0/+14
2023-07-28HACCKernels git repository has changed URL. Updating. (#39129)dslarm1-2/+2
2023-07-28Adding optional hip test (#34907)afzpatel2-1/+124
* Adding optional hip test * Modifications to run every samples test * Skipping test directories without a Makefile * fix styling and cleaning code * fix styling and changed method of itterating through sample folders * changed to new syntax for standalone tests * Updates for changes in syntax
2023-07-28libffi: add -Wno-error=implicit-function-declaration for clang >= 16 (#38356)Julien Bigot1-1/+5
2023-07-28MOLGW package: fix dependence to threaded MKL (#39028)Fabien Bruneval1-0/+2
* molgw package.py * molgw package.py almost ready * bug fix in molgw package.py * MOLGW v3.2 * black pass * duplicated line eliminated * remove FIXME in the header * add me as a maintainer * fix previous commit * sort the imports in the order spack wants * chop the too-long lines * many fixes - variants before dependences - eliminate useless build and install stages - no openmp with intel-mkl was broken * after blackization * cleaning * Update var/spack/repos/builtin/packages/molgw/package.py Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * Update var/spack/repos/builtin/packages/molgw/package.py Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * Update var/spack/repos/builtin/packages/molgw/package.py Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * Update var/spack/repos/builtin/packages/molgw/package.py Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * Update var/spack/repos/builtin/packages/molgw/package.py Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * use threaded mkl when openmp is triggered --------- Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-07-28py-distributed: add missing tblib dependency. (#39123)Matthias Wolf1-0/+1
I noticed this as we run a `pip check` on all modules we generate. This dependeny seems to have been around for a long time: https://github.com/dask/distributed/blob/2020.12.0/requirements.txt#L8 https://github.com/dask/distributed/blob/2023.4.1/pyproject.toml#L39 While it does not seem essential, it would be nice to have consistent installations by including the missing dependency.
2023-07-28gcc: add 13.2.0 (#39119)Michael Kuhn1-0/+1
2023-07-27Added support for building with Caliper (#39116)Brian Van Essen1-0/+4
2023-07-27Added the import of the regex package (#39117)Brian Van Essen2-0/+3
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