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2022-10-15Add checksum for py-seaborn 0.12.0 (#33145)iarspider1-5/+19
* Add checksum for py-seaborn 0.12.0 * Update package.py * Update package.py * [@spackbot] updating style on behalf of iarspider * Update package.py Co-authored-by: iarspider <iarspider@users.noreply.github.com>
2022-10-14rocksdb: add 7.7.3 (#33341)Michael Kuhn1-0/+1
2022-10-15depfile: update docs (#33279)Harmen Stoppels1-9/+37
2022-10-14glib: add 2.74.0 and 2.72.4 (#33332)Michael Kuhn1-2/+6
2022-10-14gptl: new version 8.1.1; use the correct mpi fortran compiler (#33235)WuK1-0/+5
* gptl: new version 8.1.1; use the correct `mpifc` * add `F90` and `$F77`
2022-10-14seacas: update to latest release (#33330)Greg Sjaardema1-0/+3
Add checksum for latest tag/release
2022-10-14ninja: New version 1.11.1 (#33215)Erik Schnetter1-0/+1
2022-10-14Add checksum for py-oauthlib 3.2.1 (#33201)iarspider1-2/+21
* Add checksum for py-oauthlib 3.2.1 * Update package.py * [@spackbot] updating style on behalf of iarspider * Update package.py * Update package.py Co-authored-by: iarspider <iarspider@users.noreply.github.com>
2022-10-14py-libensemble: updating package for v0.9.3 (#33298)John-Luke Navarro1-5/+3
* commit updating py-libensemble package for 0.9.3 * removed commented-out lines
2022-10-14 petsc,py-petsc4py,slepc,py-slepc4py: add version 3.18.0 (#32938)Satish Balay7-1/+94
* petsc,py-petsc4py,slepc,py-slepc4py: add version 3.18.0 * workaround for dealii build failure [with petsc version check] * pism: add compatibility fix to for petsc@3.18 * add in hipsolver dependency
2022-10-14hip@5.2.0 onwards: set prefix properly (#33257)eugeneswalker1-4/+6
* hip-set-prefix-rocm5.2.0-onwards * Update var/spack/repos/builtin/packages/hip/package.py Update description Co-authored-by: Satish Balay <balay@mcs.anl.gov>
2022-10-14Fix pika@0.9.0 sha (#33307)Auriane R1-1/+1
2022-10-13UPC++/GASNet-EX 2022.9.0 update (#33277)Dan Bonachea2-4/+10
* gasnet: Add new release hash * upcxx: Add new release hash * gasnet: misc updates * upcxx: misc updates
2022-10-13Add checksum for py-gitpython 3.1.27 (#33285)iarspider1-1/+5
* Add checksum for py-gitpython 3.1.27 * Update package.py * Update var/spack/repos/builtin/packages/py-gitpython/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-13meson: remove slash in path (#33292)Adam J. Stewart1-1/+1
2022-10-13gitlab ci: Print better information about broken specs (#33124)Scott Wittenburg3-49/+98
When a pipeline generation job is automatically failed because it generated jobs for specs known to be broken on develop, print better information about the broken specs that were encountered. Include at a minimum the hash and the url of the job whose failure caused it to be put on the broken specs list in the first place.
2022-10-13Add checksum for py-psutil 5.9.2 (#33139)iarspider1-0/+3
2022-10-13add version 1.12.3 of parallel-netcdf (#33286)Jim Edwards1-0/+1
2022-10-13py-execnet: 1.9.0 (#33282)Harmen Stoppels1-1/+3
* py-execnet: 1.9.0 * bounds
2022-10-13new package (#33262)Luke Diorio-Toth1-0/+36
2022-10-13Add missing upperbound to docs/spack.yaml (#33280)Harmen Stoppels1-0/+2
2022-10-13libcroco does not respect gtk-doc configure flag, so removing variant (#32890)Gregory Lee1-5/+7
* libcroco does not respect gtk-doc configure flag, so removing variant
2022-10-13py-meson: remove package (#33295)Adam J. Stewart2-27/+1
2022-10-13py-alive-progress, py-about-time, py-graphme: new packages (#33252)Luke Diorio-Toth3-0/+67
* new package + deps * Update var/spack/repos/builtin/packages/py-about-time/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-alive-progress/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * removed unnecessary python version dep Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-13Lua: Add versions and minor clean up (#33037)Chris White1-5/+14
* add new lua releases * split install phase and move it into a build phase, remove hardcoded standard flag * revert back to the original hardcoded std flag, guard patch against versions above 5.4
2022-10-13py-kornia: add v0.6.8 (#33287)Adam J. Stewart1-0/+1
2022-10-13py-shapely: add v1.8.5 (#33259)Adam J. Stewart1-0/+1
2022-10-13Add checksum for py-atomicwrites 1.4.1 (#33284)iarspider1-0/+1
2022-10-13Add checksum for py-asn1crypto 1.5.1 (#33283)iarspider1-0/+1
2022-10-13Fix ROCm constraints for ginkgo@glu_experimental in HiOp (#32499)Cameron Rutherford2-4/+4
* Remove ROCm constraints for ginkgo@glu_experimental. * Fix style. * Apply @tcojean suggestion. * Fix hip_repair_options in camp package. * Remvoe old ROCm logic. * Remove added whitespace. * Fix style issue. * Revert camp changes. * Revert camp whitespace change. * Set Ginkgo preferred version to 1.4.0
2022-10-13py-pyopenssl: add version 22.1.0 (#33189)Laurent Aphecetche1-1/+4
* py-pyopenssl: add version 22.1.0 * Update var/spack/repos/builtin/packages/py-pyopenssl/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-13Add checksum for py-bokeh 2.4.3 (#33236)iarspider1-6/+8
* Add checksum for py-bokeh 2.4.3 * [@spackbot] updating style on behalf of iarspider Co-authored-by: iarspider <iarspider@users.noreply.github.com>
2022-10-13Add checksum for py-mpld3 0.5.8 (#33239)iarspider1-0/+1
2022-10-13Add checksum for py-cloudpickle 2.2.0 (#33240)iarspider1-0/+2
2022-10-13Add checksum for py-bottle 0.12.23 (#33241)iarspider1-0/+1
2022-10-13Add checksum for py-pymongo 4.2.0 (#33234)iarspider1-0/+2
2022-10-13Add checksum for py-keyring 23.9.1 (#33185)iarspider1-2/+4
* Add checksum for py-keyring 23.9.1 * Update package.py
2022-10-13Add checksum for py-setuptools-rust 1.5.1 (#33188)iarspider1-2/+3
* Add checksum for py-setuptools-rust 1.5.1 * Update package.py
2022-10-13Add checksum for py-jupyter-server-mathjax 0.2.6 (#33203)iarspider1-2/+4
* Add checksum for py-jupyter-server-mathjax 0.2.6 * Update package.py * Update package.py
2022-10-13Add checksum for py-regex 2022.8.17 (#33209)iarspider1-1/+4
* Add checksum for py-regex 2022.8.17 * Update var/spack/repos/builtin/packages/py-regex/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-13Add checksum for py-async-lru 1.0.3 (#33196)iarspider1-1/+10
* Add checksum for py-async-lru 1.0.3 * [@spackbot] updating style on behalf of iarspider * Update var/spack/repos/builtin/packages/py-async-lru/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py Co-authored-by: iarspider <iarspider@users.noreply.github.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-13Bump docker/login-action from 2.0.0 to 2.1.0 (#33268)dependabot[bot]1-2/+2
Bumps [docker/login-action](https://github.com/docker/login-action) from 2.0.0 to 2.1.0. - [Release notes](https://github.com/docker/login-action/releases) - [Commits](https://github.com/docker/login-action/compare/49ed152c8eca782a232dede0303416e8f356c37b...f4ef78c080cd8ba55a85445d5b36e214a81df20a) --- updated-dependencies: - dependency-name: docker/login-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2022-10-13Bump docker/setup-buildx-action from 2.0.0 to 2.1.0 (#33267)dependabot[bot]1-1/+1
Bumps [docker/setup-buildx-action](https://github.com/docker/setup-buildx-action) from 2.0.0 to 2.1.0. - [Release notes](https://github.com/docker/setup-buildx-action/releases) - [Commits](https://github.com/docker/setup-buildx-action/compare/dc7b9719a96d48369863986a06765841d7ea23f6...95cb08cb2672c73d4ffd2f422e6d11953d2a9c70) --- updated-dependencies: - dependency-name: docker/setup-buildx-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2022-10-12exodusii: add fortran variant (#33074)William R Tobin1-0/+11
* add fortran variant, pass cmake options to build with fortran + specified compiler/mpi compiler wrapper (following existing style in the package), activate exodus fortran wrapper library compilation * change variant description, fix style
2022-10-12gpi-space: add new version (#33184)Max Zeyen1-9/+20
* gpi-space: add new version * gpi-space: fix flake8 formatting issues * gpi-space: fix more flake8 issues
2022-10-12Added hash for version 2.7.0-6 (#33263)Brian Van Essen1-0/+1
2022-10-12env depfile: allow deps only install (#33245)Harmen Stoppels3-65/+69
* env depfile: allow deps only install - Refactor `spack env depfile` to use a Jinja template, making it a bit easier to follow as a human being. - Add a layer of indirection in the generated Makefile through an `<prefix>/.install-deps/<hash>` target, which allows one to specify different options when installing dependencies. For example, only verbose/debug mode on when installing some particular spec: ``` $ spack -e my_env env depfile -o Makefile --make-target-prefix example $ make example/.install-deps/<hash> -j16 $ make example/.install/<hash> SPACK="spack -d" SPACK_INSTALL_FLAGS=--verbose -j16 ``` This could be used to speed up `spack ci rebuild`: - Parallel install of dependencies from buildcache - Better readability of logs, e.g. reducing verbosity when installing dependencies, and splitting logs into deps.log and current_spec.log * Silence please!
2022-10-12NVIDIA HPC SDK: add v22.9 (#33258)Filippo Spiga1-0/+14
2022-10-12update Bioconductor R packages (#33224)Glenn Johnson29-1/+38
* Add bioc attribute to r-do-db * add version 1.38.1 to bioconductor package r-annotationforge * add version 1.30.4 to bioconductor package r-biocparallel * add version 2.64.1 to bioconductor package r-biostrings * add version 4.4.4 to bioconductor package r-clusterprofiler * add version 2.12.1 to bioconductor package r-complexheatmap * add version 1.18.1 to bioconductor package r-delayedmatrixstats * add version 3.22.1 to bioconductor package r-dose * add version 3.38.4 to bioconductor package r-edger * add version 1.16.2 to bioconductor package r-enrichplot * add version 2.20.2 to bioconductor package r-ensembldb * add version 1.32.4 to bioconductor package r-genomeinfodb * add version 1.32.1 to bioconductor package r-genomicalignments * add version 1.48.4 to bioconductor package r-genomicfeatures * add version 1.44.1 to bioconductor package r-ggbio * add version 3.4.4 to bioconductor package r-ggtree * add version 1.24.2 to bioconductor package r-hdf5array * add version 2.30.1 to bioconductor package r-iranges * add version 1.36.3 to bioconductor package r-keggrest * add version 3.52.4 to bioconductor package r-limma * add version 1.8.1 to bioconductor package r-matrixgenerics * update r-org-hs-eg-db * add version 1.38.1 to bioconductor package r-organismdbi * add version 1.36.1 to bioconductor package r-pathview * add version 1.56.1 to bioconductor package r-rtracklayer * add version 1.4.1 to bioconductor package r-scaledmatrix * add version 1.24.1 to bioconductor package r-scran * add version 1.6.3 to bioconductor package r-scuttle * add version 1.18.1 to bioconductor package r-singlecellexperiment * add version 1.20.2 to bioconductor package r-treeio * Revert "Add bioc attribute to r-do-db" This reverts commit 36be5c6072c98ec70bb16f9d613a6fe24407fee1. * Fix quotes on versions Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2022-10-12py-pythran: customize headers attribute (#33242)Massimiliano Culpo1-0/+9
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