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* gnu: LLVM, Clang, LLD: Update to 14.0.4.•••* gnu/packages/llvm.scm (%llvm-monorepo-hashes): Adjust for 14.0.4. (%llvm-patches): Likewise. (llvm-14, clang-14, lld-14): Update to 14.0.4. * gnu/packages/patches/clang-14.0-libc-search-path.patch: Adjust for upstream changes. Marius Bakke2022-06-012-15/+16
* gnu: libmicrohttpd: Update to 0.9.75.•••* gnu/packages/gnunet.scm (libmicrohttpd): Update to 0.9.75. Tobias Geerinckx-Rice2022-05-291-3/+2
* gnu: libmicrohttpd: Use G-expressions.•••* gnu/packages/gnunet.scm (libmicrohttpd)[arguments]: Rewrite as G-expressions. Tobias Geerinckx-Rice2022-05-291-1/+5
* gnu: pgpdump: Update to 0.35.•••* gnu/packages/gnupg.scm (pgpdump): Update to 0.35. Tobias Geerinckx-Rice2022-05-291-3/+3
* gnu: ocrfeeder: Update to 0.8.5.•••* gnu/packages/gnome.scm (ocrfeeder): Update to 0.8.5. [arguments]: Don't explicitly return #t from phases. Tobias Geerinckx-Rice2022-05-291-4/+3
* gnu: icedove: Use updated clang and llvm.•••* gnu/packages/gnuzilla.scm (icedove)[native-inputs]: Replace `clang-11` and `clang-11` with the default version, which is now 13. Jonathan Brielmaier2022-06-011-2/+2
* gnu: icedove: Update to 91.10.0 [fixes CVE-2022-1834].•••* gnu/packages/gnuzilla.scm (icedove): Update to 91.10.0. Jonathan Brielmaier2022-06-011-4/+4
* gnu: tractor: Update to 3.13.•••* gnu/packages/tor.scm (tractor): Update to 3.13. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr> Danial Behzadi2022-05-291-2/+2
* gnu: fortune-mod: Fix fortune directory.•••It now matches the one given in the fortune(6) man page. * gnu/packages/games.scm (fortune-mode)[arguments]: Install to /share rather than /local/share/games. Shorten the 'fix-install-directory phase. Tobias Geerinckx-Rice2022-05-291-12/+15
* gnu: pigx-scrnaseq: Update to 1.1.9.•••* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 1.1.9. [arguments]: Remove 'autoreconf phase. [native-inputs]: Remove autoconf and automake. Ricardo Wurmus2022-06-011-16/+2
* gnu: pigx-bsseq: Update to 0.1.7.•••* gnu/packages/bioinformatics.scm (pigx-bsseq): Update to 0.1.7. [source]: Remove patch. [arguments]: Remove 'autoreconf phase. [native-inputs]: Remove automake and autoconf. * gnu/packages/patches/pigx-bsseq-no-citeproc.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove patch. Ricardo Wurmus2022-06-013-50/+3
* gnu: pigx-chipseq: Update to 0.1.0.•••* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.1.0. [source]: Remove patch. [arguments]: Remove 'autoreconf phase. [native-inputs]: Remove autoconf and automake. * gnu/packages/patches/pigx-chipseq-no-citeproc.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove patch. Ricardo Wurmus2022-06-013-50/+3
* gnu: vim: Update to 8.2.5048.•••* gnu/packages/vim.scm (vim): Update to 8.2.5048. [arguments]: Patch another instance of '/bin/sh'. Efraim Flashner2022-06-011-3/+4
* gnu: pigx-rnaseq: Update to 0.1.0.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.1.0. [arguments]: Remove phase 'patch-knitr. Ricardo Wurmus2022-06-011-9/+2
* gnu: pigx-rnaseq: Update to 0.0.21.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.21. Ricardo Wurmus2022-06-011-2/+2
* gnu: pigx-rnaseq: Fix build.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq)[arguments]: Add phase 'patch-knitr. Ricardo Wurmus2022-06-011-0/+7
* gnu: gnome-commander: Update to 1.14.2.•••* gnu/packages/gnome.scm (gnome-commander): Update to 1.14.2. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: angband: Update to 4.2.4.•••* gnu/packages/games.scm (angband): Update to 4.2.4. [arguments]: Don't explicitly return #t from phases. Tobias Geerinckx-Rice2022-05-291-6/+4
* gnu: freeipmi: Update to 1.6.9.•••* gnu/packages/freeipmi.scm (freeipmi): Update to 1.6.9. Tobias Geerinckx-Rice2022-05-291-3/+3
* gnu: corefreq: Update to 1.90.1.•••* gnu/packages/linux.scm (corefreq): Update to 1.90.1. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: services: Update setuid service description.•••* gnu/services.scm (setuid-program-service-type)[description]: Remove ‘root’, add ‘setgid’. Tobias Geerinckx-Rice2022-05-291-1/+1
* gnu: libfprint: Update to 1.94.4.•••* gnu/packages/freedesktop.scm (libfprint): Update to 1.94.4. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: fprintd: Update to 1.94.2.•••* gnu/packages/freedesktop.scm (fprintd): Update to 1.94.2. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: fprintd: Remove input labels.•••* gnu/packages/freedesktop.scm (fprintd)[native-inputs]: Remove input labels. Tobias Geerinckx-Rice2022-05-291-12/+12
* gnu: fprintd: Fix build.•••* gnu/packages/freedesktop.scm (fprintd)[native-inputs]: Add python. Tobias Geerinckx-Rice2022-05-291-2/+3
* gnu: beancount: Update to 2.3.5.•••* gnu/packages/finance.scm (beancount): Update to 2.3.5. Tobias Geerinckx-Rice2022-05-291-3/+2
* gnu: caf: Update to 0.18.6.•••* gnu/packages/cpp.scm (caf): Update to 0.18.6. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: quazip: Update to 1.3.•••* gnu/packages/compression.scm (quazip): Update to 1.3. Tobias Geerinckx-Rice2022-05-291-2/+2
* gnu: foomatic-filters: Use project home page.•••* gnu/packages/cups.scm (foomatic-filters)[home-page]: Point upstream. Tobias Geerinckx-Rice2022-05-291-2/+1
* gnu: Add sylamer.•••* gnu/packages/bioinformatics.scm (sylamer): New variable. Ricardo Wurmus2022-06-011-0/+41
* gnu: linux-libre 5.10: Update to 5.10.119.•••* gnu/packages/linux.scm (linux-libre-5.10-version): Update to 5.10.119. (linux-libre-5.10-pristine-source): Update hash. Leo Famulari2022-05-311-2/+2
* gnu: linux-libre 5.15: Update to 5.15.44.•••* gnu/packages/linux.scm (linux-libre-5.15-version): Update to 5.15.44. (linux-libre-5.15-pristine-source): Update hash. Leo Famulari2022-05-311-2/+2
* gnu: linux-libre: Update to 5.17.12.•••* gnu/packages/linux.scm (linux-libre-5.17-version): Update to 5.17.12. (linux-libre-5.17-pristine-source): Update hash. Leo Famulari2022-05-311-2/+2
* gnu: Add r-gsalib.•••* gnu/packages/cran.scm (r-gsalib): New variable. Ricardo Wurmus2022-05-311-0/+19
* gnu: Add glibc-locales-2.32.•••* gnu/packages/base.scm (glibc-locales-2.32): New variable. Ricardo Wurmus2022-05-311-0/+3
* gnu: Add glibc-locales-2.31.•••* gnu/packages/base.scm (glibc-locales-2.31): New variable. Ricardo Wurmus2022-05-311-0/+3
* gnu: Add glibc-locales-2.30.•••* gnu/packages/base.scm (glibc-locales-2.30): New variable. Ricardo Wurmus2022-05-311-0/+3
* gnu: Add glibc-2.32.•••* gnu/packages/base.scm (glibc-2.32): New variable. Ricardo Wurmus2022-05-311-0/+54
* gnu: Remove python2-biopython.•••* gnu/packages/bioinformatics.scm (python2-biopython): Delete variable. Maxim Cournoyer2022-05-311-3/+0
* gnu: Remove pplacer-scripts.•••* gnu/packages/bioinformatics.scm (pplacer-scripts): Delete variable. Maxim Cournoyer2022-05-311-39/+0
* gnu: Remove pplacer.•••* gnu/packages/bioinformatics.scm (pplacer): Delete variable. Maxim Cournoyer2022-05-311-117/+0
* gnu: Remove python2-pytest-cov.•••* gnu/packages/check.scm (python2-pytest-cov): Delete variable. Maxim Cournoyer2022-05-311-32/+0
* gnu: Remove python2-called-python.•••* gnu/packages/python.scm (python2-called-python): Delete variable. Maxim Cournoyer2022-05-311-8/+0
* gnu: Remove python-prompt-toolkit-2.•••* gnu/packages/python-xyz.scm (python-prompt-toolkit-2): Delete variable. (python-prompt-toolkit)[properties]: Delete field. (python-jupyter-console): Replace python-prompt-toolkit-2 with python-prompt-toolkit. Maxim Cournoyer2022-05-311-17/+1
* gnu: Remove python2-setuptools.•••* gnu/packages/python-xyz.scm (python2-setuptools): Delete variable. (python-setuptools)[properties]: Delete field. * gnu/packages/syncthing.scm (syncthing-gtk): Delete commented native input. * guix/lint.scm (check-inputs-should-not-be-an-input-at-all): Remove obsolete entries. Maxim Cournoyer2022-05-312-59/+0
* gnu: Remove python2-checkm-genome.•••* gnu/packages/bioinformatics.scm (python2-checkm-genome): Delete variable. Maxim Cournoyer2022-05-311-3/+0
* gnu: qtwebengine: Re-style inputs.•••* gnu/packages/qt.scm (qtwebengine)[phases]: Delete trailing #t. {substitute-source}: Use search-input-file. [inputs, native-inputs]: Use new style. Maxim Cournoyer2022-05-311-72/+68
* gnu: Remove python2-backports-csv.•••* gnu/packages/python-xyz.scm (python2-backports-csv): Delete variable. Maxim Cournoyer2022-05-311-10/+0
* gnu: python2-six: Disable tests.•••* gnu/packages/python-xyz.scm (python2-six)[native-inputs]: Clear. [phases]: Delete check phase. Maxim Cournoyer2022-05-311-1/+10
* gnu: Remove python2-fonttools.•••* gnu/packages/python-xyz.scm (python2-fonttools): Delete variable. (python-fonttools)[properties]: Delete field. Maxim Cournoyer2022-05-311-15/+1