aboutsummaryrefslogtreecommitdiff
Commit message (Collapse)AuthorAge
* gnu: python-velocyto: Set cache directory for Numba.Ricardo Wurmus2022-03-31
| | | | | * gnu/packages/bioinformatics.scm (python-velocyto)[arguments]: Add phase 'set-numba-cache-dir.
* gnu: wfmash: Enable test suite.Efraim Flashner2022-03-31
| | | | | | * gnu/packages/bioinformatics.scm (wfmash)[arguments]: Don't disable tests. Add custom 'check phase based on upstream's own CI tests. [native-inputs]: Add samtools.
* gnu: Add wfmash.Arun Isaac2022-03-31
| | | | | | * gnu/packages/bioinformatics.scm (wfmash): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: atomic-queue: Do not look for boost when cross-compiling.Arun Isaac2022-03-31
| | | | | | | * gnu/packages/cpp.scm (atomic-queue)[arguments]: When cross-compiling, add a do-not-check-for-boost phase. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: atomic-queue: Run tests correctly.Arun Isaac2022-03-31
| | | | | | | * gnu/packages/cpp.scm (atomic-queue)[arguments]: In the check phase, run tests instead of returning a function to run them. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: htslib: Add bzip2 and xz to inputs.Arun Isaac2022-03-31
| | | | | | | | | | htslib links to libbz2 from bzip2 and liblzma from xz. Therefore, bzip2 and xz should be listed in inputs even though they are already present implicitly in native-inputs. Else, cross-compilation will fail. * gnu/packages/bioinformatics.scm (htslib)[inputs]: Add bzip2 and xz. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: gsl: Force bootstrap when cross-compiling to riscv64-linux.Arun Isaac2022-03-31
| | | | | | | | | * gnu/packages/maths.scm (gsl)[arguments]: Force an autotools bootstrap when cross-compiling to riscv64-linux. [native-inputs]: Add autoconf, automake and libtool when cross-compiling to riscv64-linux. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: python-loompy: Update to 3.0.7.Ricardo Wurmus2022-03-31
| | | | | | | | * gnu/packages/bioinformatics.scm (python-loompy): Update to 3.0.7. [arguments]: Add build phases 'fix-h5py-error and 'set-numba-cache-dir; respect TESTS? argument in 'check phase. [propagated-inputs]: Add python-click, python-numba, and python-numpy-groupies.
* gnu: Add python-numpy-groupies.Ricardo Wurmus2022-03-31
| | | | * gnu/packages/python-science.scm (python-numpy-groupies): New variable.
* gnu: Add riscv-pk.Arun Isaac2022-03-31
| | | | | | * gnu/packages/virtualization.scm (riscv-pk): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: spike: Substitute path to dtc instead of wrapping executables.Arun Isaac2022-03-31
| | | | | | | | * gnu/packages/virtualization.scm (spike)[arguments]: Delete the wrap-binary phase. Add a configure-dtc-path phase that substitutes the absolute path to dtc. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: python-anndata: Update to 0.8.0.Ricardo Wurmus2022-03-31
| | | | | * gnu/packages/python-xyz.scm (python-anndata): Update to 0.8.0. [arguments]: Remove build phase 'relax-dependency-requirements.
* gnu: python-h5py: Update to 3.6.0.Ricardo Wurmus2022-03-31
| | | | | * gnu/packages/python-xyz.scm (python-h5py): Update to 3.6.0. [arguments]: Set HDF5_DIR variable instead of patching files.
* gnu: python2-h5py: Detach version and source from python-h5py.Ricardo Wurmus2022-03-31
| | | | | | * gnu/packages/python-xyz.scm (python2-h5py): Override source and version field. (python-h5py)[properties]: Record python2-variant.
* gnu: weechat: Update to 3.5.Efraim Flashner2022-03-30
| | | | | * gnu/packages/irc.scm (weechat): Update to 3.5. [inputs]: Add zstd:lib.
* gnu: msmtp: Update to 1.8.20.Efraim Flashner2022-03-30
| | | | * gnu/packages/mail.scm (msmtp): Update to 1.8.20.
* gnu: ncdu-2: Update to 2.1.1.Efraim Flashner2022-03-30
| | | | * gnu/packages/ncdu.scm (ncdu-2): Update to 2.1.1.
* gnu: ncdu2: Set upstream name.Efraim Flashner2022-03-30
| | | | * gnu/packages/ncdu.scm (ncdu-2)[properties]: New field.
* gnu: anonip: Update to 1.1.0.Ricardo Wurmus2022-03-30
| | | | | | | * gnu/packages/web.scm (anonip): Update to 1.1.0. [source]: Fetch from git. [arguments]: Run tests with pytest. [native-inputs]: Add python-pytest and python-pytest-cov.
* lsof: Prevent mass-rebuild.Mathieu Othacehe2022-03-30
| | | | | * gnu/packages/lsof.scm (lsof): Set LINUX_CONF_CC variable only when cross-compiling.
* gnu: lbzip2: Fix cross-compilation.Brian Kubisiak2022-03-30
| | | | | | | * gnu/packages/compression.scm (lbzip2)[arguments]: Search (or native-inputs inputs) for gnulib-tool.py. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
* gnu: lsof: Fix cross-compilation.Brian Kubisiak2022-03-30
| | | | | | | * gnu/packages/lsof (lsof)[arguments]: Add LINUX_CONF_CC environment variable. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
* gnu: Mutt: Update to 2.2.2.Leo Famulari2022-03-29
| | | | * gnu/packages/mail.scm (mutt): Update to 2.2.2.
* gnu: linux-libre 4.9: Update to 4.9.309.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.309. (linux-libre-4.9-pristine-source): Update hash.
* gnu: linux-libre 4.14: Update to 4.14.274.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.274. (linux-libre-4.14-pristine-source): Update hash.
* gnu: linux-libre 4.19: Update to 4.19.237.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.237. (linux-libre-4.19-pristine-source): Update hash.
* gnu: linux-libre 5.4: Update to 5.4.188.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.188. (linux-libre-5.4-pristine-source): Update hash.
* gnu: linux-libre 5.10: Update to 5.10.109.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.109. (linux-libre-5.10-pristine-source): Update hash.
* gnu: linux-libre 5.15: Update to 5.15.32.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.32. (linux-libre-5.15-pristine-source): Update hash.
* gnu: linux-libre 5.16: Update to 5.16.18.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-5.16-version): Update to 5.16.18. (linux-libre-5.16-pristine-source): Update hash.
* gnu: linux-libre 5.17: Update to 5.17.1.Leo Famulari2022-03-29
| | | | | * gnu/packages/linux.scm (linux-libre-5.17-version): Update to 5.17.1. (linux-libre-5.17-pristine-source): Update hash.
* gnu: gmid: Update to 1.8.2.cage2022-03-29
| | | | | | | * gnu/packages/web.scm (gmid): Update to 1.8.2. [native-inputs]: Remove which. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: git-annex: Update to 10.20220322.Kyle Meyer2022-03-29
| | | | | | | * gnu/packages/haskell-apps.scm (git-annex): Update to 10.20220322. [inputs]: Add ghc-http-client-restricted. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: Add ghc-http-client-restricted.Kyle Meyer2022-03-29
| | | | | | * gnu/packages/haskell-web.scm (ghc-http-client-restricted): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: ghc-http-client-tls: Update to 0.3.6.1.Kyle Meyer2022-03-29
| | | | | | * gnu/packages/haskell-web.scm (ghc-http-client-tls): Update to 0.3.6.1. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: ghc-http-client: Update to 0.7.11.Kyle Meyer2022-03-29
| | | | | | | * gnu/packages/haskell-web.scm (ghc-http-client): Update to 0.7.11. [inputs]: Add ghc-iproute. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: r-signac: Update to 1.6.0-2.458e647.Mădălin Ionel Patrașcu2022-03-29
| | | | | | | | * gnu/packages/bioinformatics.scm (r-signac): Update to 1.6.0-2.458e647. [propagated-inputs]: Remove r-annotationfilter, r-biocgenerics, r-biostrings, r-biovizbase, and r-ggbio; add r-qlcmatrix and r-tidyselect. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: plink-ng: Update to 2.00a3-20220315.Ricardo Wurmus2022-03-29
| | | | * gnu/packages/bioinformatics.scm (plink-ng): Update to 2.00a3-20220315.
* gnu: Add r-cytobackbone.Mădălin Ionel Patrașcu2022-03-29
| | | | | | * gnu/packages/bioinformatics.scm (r-cytobackbone): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: pigx-sars-cov2-ww: Update to 0.0.5.Ricardo Wurmus2022-03-29
| | | | | | | | * gnu/packages/bioinformatics.scm (pigx-sars-cov2-ww): Update to 0.0.5. [source]: Remove patch. [arguments]: Disable tests. * gnu/packages/patches/pigx-sars-cov2-ww-no-citeproc.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove it.
* gnu: pigx-rnaseq: Update to 0.0.20.Ricardo Wurmus2022-03-29
| | | | | | | | * gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.20. [source]: Remove patch. [inputs]: Add megadepth. * gnu/packages/patches/pigx-rnaseq-no-citeproc.patch: Remove patch. * gnu/local.mk (dist_patch_DATA): Remove it.
* gnu: kpeoplevcard: Use mirror URI.Efraim Flashner2022-03-29
| | | | * gnu/packages/kde-pim.scm (kpeoplevcard)[source]: Use kde mirror URI.
* gnu: pulseaudio-qt: Use mirror URI.Efraim Flashner2022-03-29
| | | | | * gnu/packages/kde-frameworks.scm (pulseaudio-qt)[source]: Use kde mirror URI.
* download: Use https for main KDE source.Efraim Flashner2022-03-29
| | | | | * guix/download.scm (%mirrors)[kde]: Use https URIs for main KDE mirrors. * tests/lint.scm ("mirror-url: kde suggestion"): New test.
* gnu: neovim: Update to 0.6.1.Luis Henrique Gomes Higino2022-03-29
| | | | | | | | * gnu/packages/vim.scm (neovim): Update to 0.6.1. Build neovim with LuaJIT in the supported platforms. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add tree-sitter.Luis Henrique Gomes Higino2022-03-29
| | | | | | * gnu/packages/text-editors.scm (tree-sitter): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add xfce4-dict.Feng Shu2022-03-29
| | | | | | * gnu/packages/xfce.scm (xfce4-dict): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: poezio: Update to 0.13.2.jgart2022-03-29
| | | | | | | | * gnu/packages/messaging.scm (poezio): Update to 0.13.2. [arguments]: Remove trailing boolean and use new style. [inputs]: Remove unused python input. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: openmpi: Update to 4.1.2Philippe SWARTVAGHER2022-03-29
| | | | | | * gnu/packages/mpi.scm (openmpi): Update to 4.1.2 Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: slurm: Install libpmi2.Ludovic Courtès2022-03-29
| | | | | | * gnu/packages/parallel.scm (slurm)[source](snippet): Let PMI2 through. [arguments]: In phase 'install-libpmi', install "contribs/pmi2". [license]: Add 'non-copyleft'.
generated by cgit v1.2.3 (git 2.45.0) at 2025-03-06 04:32:36 +0000