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2022-04-01gnu: vtk@6: Depend on Python 2.x, not 3.x.Ludovic Courtès
* gnu/packages/image-processing.scm (vtk-6)[native-inputs]: Replace PYTHON with PYTHON-2.
2022-04-01weather: Colorize the output.Ludovic Courtès
* guix/colors.scm (coloring-procedure): Export. * guix/scripts/weather.scm (report-server-coverage): Highlight the server name and colorize the availability ratio.
2022-04-01gnu: libtool: Add 2.4.7.Ludovic Courtès
* gnu/packages/autotools.scm (libtool-2.4.7): New variable.
2022-04-01gnu: libressl: Add 'release-monitoring-url' property.Ludovic Courtès
* gnu/packages/tls.scm (libressl)[properties]: New field.
2022-04-01gnu: cl-usocket: Update to 0.8.4.jgart
* gnu/packages/lisp-xyz.scm (sbcl-usocket): Update to 0.8.4. [inputs]: Use new style. Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2022-03-31gnu: libfido2: Fix cross-compilation.Sébastien Lerique
* gnu/packages/security-token.scm (libfido2)[arguments]: Set the PKG_CONFIG_EXECUTABLE variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: libfido2: Use new style for inputs.Sébastien Lerique
* gnu/packages/security-token.scm (libfido2)[inputs]: Use new style. Sort alphabetically. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: tio: Update to 1.36.Raphaël Mélotte via Guix-patches
* gnu/packages/terminals.scm (tio): Update to 1.36. [native-inputs]: Add pkg-config. [inputs]: Add libinih. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: iverilog: Add zlib dependency for LXT dump file format support.Christian Gelinek
* gnu/packages/fpga.scm (iverilog)[native-inputs]: Add zlib. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: gmid: Update to 1.8.3.cage
* gnu/packages/web.scm (gmid): Update to 1.8.3. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: plantuml: Update to 1.2022.3.Collin J. Doering
* gnu/packages/uml.scm (plantuml): Update to 1.2022.3. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: python-velocyto: Set cache directory for Numba.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (python-velocyto)[arguments]: Add phase 'set-numba-cache-dir.
2022-03-31gnu: wfmash: Enable test suite.Efraim Flashner
* 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.
2022-03-31gnu: Add wfmash.Arun Isaac
* gnu/packages/bioinformatics.scm (wfmash): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: atomic-queue: Do not look for boost when cross-compiling.Arun Isaac
* 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>
2022-03-31gnu: atomic-queue: Run tests correctly.Arun Isaac
* 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>
2022-03-31gnu: htslib: Add bzip2 and xz to inputs.Arun Isaac
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>
2022-03-31gnu: gsl: Force bootstrap when cross-compiling to riscv64-linux.Arun Isaac
* 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>
2022-03-31gnu: python-loompy: Update to 3.0.7.Ricardo Wurmus
* 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.
2022-03-31gnu: Add python-numpy-groupies.Ricardo Wurmus
* gnu/packages/python-science.scm (python-numpy-groupies): New variable.
2022-03-31gnu: Add riscv-pk.Arun Isaac
* gnu/packages/virtualization.scm (riscv-pk): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2022-03-31gnu: spike: Substitute path to dtc instead of wrapping executables.Arun Isaac
* 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>
2022-03-31gnu: python-anndata: Update to 0.8.0.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-anndata): Update to 0.8.0. [arguments]: Remove build phase 'relax-dependency-requirements.
2022-03-31gnu: python-h5py: Update to 3.6.0.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-h5py): Update to 3.6.0. [arguments]: Set HDF5_DIR variable instead of patching files.
2022-03-31gnu: python2-h5py: Detach version and source from python-h5py.Ricardo Wurmus
* gnu/packages/python-xyz.scm (python2-h5py): Override source and version field. (python-h5py)[properties]: Record python2-variant.
2022-03-30gnu: weechat: Update to 3.5.Efraim Flashner
* gnu/packages/irc.scm (weechat): Update to 3.5. [inputs]: Add zstd:lib.
2022-03-30gnu: msmtp: Update to 1.8.20.Efraim Flashner
* gnu/packages/mail.scm (msmtp): Update to 1.8.20.
2022-03-30gnu: ncdu-2: Update to 2.1.1.Efraim Flashner
* gnu/packages/ncdu.scm (ncdu-2): Update to 2.1.1.
2022-03-30gnu: ncdu2: Set upstream name.Efraim Flashner
* gnu/packages/ncdu.scm (ncdu-2)[properties]: New field.
2022-03-30gnu: anonip: Update to 1.1.0.Ricardo Wurmus
* 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.
2022-03-30lsof: Prevent mass-rebuild.Mathieu Othacehe
* gnu/packages/lsof.scm (lsof): Set LINUX_CONF_CC variable only when cross-compiling.
2022-03-30gnu: lbzip2: Fix cross-compilation.Brian Kubisiak
* gnu/packages/compression.scm (lbzip2)[arguments]: Search (or native-inputs inputs) for gnulib-tool.py. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2022-03-30gnu: lsof: Fix cross-compilation.Brian Kubisiak
* gnu/packages/lsof (lsof)[arguments]: Add LINUX_CONF_CC environment variable. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2022-03-29gnu: Mutt: Update to 2.2.2.Leo Famulari
* gnu/packages/mail.scm (mutt): Update to 2.2.2.
2022-03-29gnu: linux-libre 4.9: Update to 4.9.309.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.309. (linux-libre-4.9-pristine-source): Update hash.
2022-03-29gnu: linux-libre 4.14: Update to 4.14.274.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.274. (linux-libre-4.14-pristine-source): Update hash.
2022-03-29gnu: linux-libre 4.19: Update to 4.19.237.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.237. (linux-libre-4.19-pristine-source): Update hash.
2022-03-29gnu: linux-libre 5.4: Update to 5.4.188.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.188. (linux-libre-5.4-pristine-source): Update hash.
2022-03-29gnu: linux-libre 5.10: Update to 5.10.109.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.109. (linux-libre-5.10-pristine-source): Update hash.
2022-03-29gnu: linux-libre 5.15: Update to 5.15.32.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.32. (linux-libre-5.15-pristine-source): Update hash.
2022-03-29gnu: linux-libre 5.16: Update to 5.16.18.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.16-version): Update to 5.16.18. (linux-libre-5.16-pristine-source): Update hash.
2022-03-29gnu: linux-libre 5.17: Update to 5.17.1.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.17-version): Update to 5.17.1. (linux-libre-5.17-pristine-source): Update hash.
2022-03-29gnu: gmid: Update to 1.8.2.cage
* gnu/packages/web.scm (gmid): Update to 1.8.2. [native-inputs]: Remove which. Signed-off-by: Leo Famulari <leo@famulari.name>
2022-03-29gnu: git-annex: Update to 10.20220322.Kyle Meyer
* 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>
2022-03-29gnu: Add ghc-http-client-restricted.Kyle Meyer
* gnu/packages/haskell-web.scm (ghc-http-client-restricted): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2022-03-29gnu: ghc-http-client-tls: Update to 0.3.6.1.Kyle Meyer
* gnu/packages/haskell-web.scm (ghc-http-client-tls): Update to 0.3.6.1. Signed-off-by: Leo Famulari <leo@famulari.name>
2022-03-29gnu: ghc-http-client: Update to 0.7.11.Kyle Meyer
* 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>
2022-03-29gnu: r-signac: Update to 1.6.0-2.458e647.Mădălin Ionel Patrașcu
* 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>
2022-03-29gnu: plink-ng: Update to 2.00a3-20220315.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (plink-ng): Update to 2.00a3-20220315.
2022-03-29gnu: Add r-cytobackbone.Mădălin Ionel Patrașcu
* gnu/packages/bioinformatics.scm (r-cytobackbone): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
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