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2020-12-07gnu: minimap2: Fix build on aarch64-linux....* gnu/packages/bioinformatics.scm (minimap2)[arguments]: Adjust configure-flags to be better per-architecture. [source]: Add patch. * gnu/packages/patches/minimap2-aarch64-support.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Efraim Flashner
2020-12-06gnu: hplip: Update to 3.20.11....* gnu/packages/cups.scm (hplip): Update to 3.20.11. [source]: Remove upstreamed patch. * gnu/packages/patches/hplip-fix-bug-1898438.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice
2020-12-06gnu: pam-mount: Update to 2.17....* gnu/packages/admin.scm (pam-mount): Update to 2.17. [source]: Remove upstreamed patch. * gnu/packages/patches/pam-mount-luks2-support.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice
2020-12-06gnu: knot-resolver: Update to 5.2.0....* gnu/packages/dns.scm (knot-resolver): Update to 5.2.0. [source]: Add patch from upstream commit to fix the internal map() function on 32-bit platforms. [native-inputs]: Add texinfo to enable generating the manual in Info format. [inputs]: Add nghttp2:lib to enable the new DNS-over-HTTPS implementation. * gnu/packages/patches/knot-resolver-fix-map-command-on-32-bit.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: 宋文武 <iyzsong@member.fsf.org> Simon South
2020-12-05gnu: Add libexpected....* gnu/packages/cpp.scm (libexpected): New variable. * gnu/packages/patches/libexpected-nofetch.patch: Add patch. * gnu/local.mk: Reference patch. Brett Gilio
2020-12-05gnu: superlu-dist: Update to 6.4.0....* gnu/packages/maths.scm (superlu-dist): Update to 6.4.0 [source]: Use git-fetch, as tarballs are no longer published. * gnu/packages/patches/superlu-dist-awpm-grid.patch: Remove all but the first hunk; they are unnecessary. Eric Bavier
2020-12-05gnu: combinatorial-blas: Adjust AWPM headers for library use....Fixes use in latest versions of SuperLU_DIST. See e.g. https://github.com/xiaoyeli/superlu_dist/issues/60 * gnu/packages/patches/combinatorial-blas-awpm.patch: Remove globals related to performance measurement. Declare non-template function inline. Eric Bavier
2020-12-05gnu: cl-asdf: Improve priorities of configuration file search....* gnu/packages/patches/cl-asdf-config-directories.patch: New file. * gnu/local.mk (dist_PATCH_DATA): Add it. * gnu/packages/lisp.scm (cl-asdf)[native-inputs]: Add it. [arguments]: Apply the new patch. Co-authored-by: Pierre Neidhardt <mail@ambrevar.xyz> Guillaume Le Vaillant
2020-12-01Revert "gnu: python-packaging: Update to 20.4."...This reverts commit 71b15b4874b7f9ec7001d2916a8ab27dcce6cdc0. Marius Bakke
2020-12-01gnu: clisp: Remove unused patch....This is a follow-up for 074236d19796577b2f55b3c7030c14242efa8f3f. * gnu/patches/clisp-remove-failing-test.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove it. Guillaume Le Vaillant
2020-12-01gnu: Add clml....* gnu/packages/lisp-xyz.scm (cl-clml, sbcl-clml): New variables. * gnu/packages/patches/sbcl-clml-fix-types.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Guillaume Le Vaillant
2020-11-30gnu: python-packaging: Update to 20.4....* gnu/packages/python-xyz.scm (python-packaging): Update to 20.4. [source]: Remove patch that has been merged upstream. * gnu/packages/patches/python-packaging-test-arch.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Apply removal. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr> Tanguy Le Carrour
2020-11-30gnu: sudo: Update to 1.9.4....* gnu/packages/admin.scm (sudo): Update to 1.9.4. [source]: Add patch. * gnu/packages/patches/sudo-fix-build-without-sendmail.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-29gnu: weasyprint: Update to 52.1....Fixes <https://issues.guix.gnu.org/42409>. * gnu/packages/patches/weasyprint-library-paths.patch: Delete. * gnu/packages/pdf.scm (weasyprint): Update to 52.1 [phases]{patch-library-paths}: Adjust. {check}: Remove. {register-dejavu-font}: New phase. [native-inputs]: Add font-dejavu. Maxim Cournoyer
2020-11-29gnu: python-tinycss2: Update to 1.1.0....* gnu/packages/patches/python-tinycss2-flake8-compat.patch: Delete file. * gnu/local.mk (dist_patch_DATA): De-register it. * gnu/packages/python-web.scm (python-tinycss2): Update to 1.1.0. [source]: Remove patch. [arguments]: Remove field, disabling tests. [native-inputs]: Remove field. Maxim Cournoyer
2020-11-29gnu: python-cairocffi: Update to 1.2.0....* gnu/packages/python-xyz.scm (python-cairocffi): Update to 1.2.0. [source]: Fetch from Git. [patches]: Remove field. [inputs]: Remove pango. [native-inputs]: Remove pkg-config and python-docutils. Add python-numpy and python-sphinx-rtd-theme. [phases]{patch-paths}: Adjust. Fix the patching of gdk-3. {disable-linters}: New phase. {install-doc}: Adjust. The license file is now installed by a build phase. * gnu/packages/patches/python-cairocffi-dlopen-path.patch: Delete file. * gnu/local.mk (dist_patch_DATA): De-register it. Maxim Cournoyer
2020-11-28Merge branch 'staging'Marius Bakke
2020-11-28gnu: Add gnash....* gnu/packages/animation.scm (gnash): New variable. * gnu/packages/patches/gnash-fix-giflib-version: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Christopher Baines <mail@cbaines.net> Vinicius Monego
2020-11-27gnu: Transmission: Fix localization of transmission-gtk....* gnu/packages/bittorrent.scm (transmission)[source]: Add patch to make Transmission honor the "localedir" option to its configure script. [arguments]<configure-flags>: Use "localedir" to set the "gui" output as the location for (GTK-specific) localization data. <phases>: Update "move-gui" to remove a now-superfluous call to "mkdir" and omit "share/locale" from the list of directories needing to be moved between outputs. * gnu/packages/patches/transmission-honor-localedir.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Leo Famulari <leo@famulari.name> Simon South
2020-11-26Merge branch 'master' into stagingMarius Bakke
2020-11-26gnu: python-aiohttp: Update to 3.7.3....* gnu/packages/patches/python-aiohttp-3.6.2-no-warning-fail.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/python-web.scm (python-aiohttp)[source](patches): Remove. [arguments]: Use UTIME instead of calling out to 'touch'. Don't delete now-working tests; but disable some new ones. Replace the 'check' phase. [propagated-inputs]: Add PYTHON-TYPING-EXTENSIONS. [native-inputs]: Remove PYTHON-PYTEST-RUNNER, PYTHON-PYTEST-XDIST, PYTHON-PYTEST-TIMEOUT, and PYTHON-PYTEST-FORKED. Add PYTHON-PYTEST and PYTHON-RE-ASSERT. Marius Bakke
2020-11-25gnu: openssh: Fix ssh-copy-id....* gnu/packages/patches/openssh-fix-ssh-copy-id.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ssh.scm (openssh)[source]: Use it. Signed-off-by: Leo Famulari <leo@famulari.name> Jesse Gibbons
2020-11-26Merge branch 'master' into stagingMarius Bakke
2020-11-25gnu: Mutt: Update to 2.0.2 [fixes CVE-2020-28896]....* gnu/packages/mail.scm (mutt): Update to 2.0.2. * gnu/packages/patches/mutt-store-references.patch: Adjust to changes in Mutt 2.0.2. Leo Famulari
2020-11-24gnu: mupdf: Use only dynamic linking....* gnu/packages/pdf.scm (mupdf)[source]: Add patch. [arguments]: Build and find the shared library. (zathura-pdf-mupdf)[arguments]: Add a 'remove-libmupdfthird.a-requirement phase to deal with the now-missing static one. * gnu/packages/patches/mupdf-fix-linkage.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-23Merge branch 'master' into stagingMarius Bakke
2020-11-23gnu: ungoogled-chromium: Update to 87.0.4280.66-0.1f7cdef....* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for 87. (arch-patch, %arch-revision, %arch-patches): Remove. (ungoogled-chromium-snippet): Remove %ARCH-PATCHES. (%ungoogled-revision): Set to 1f7cdef6dfa8f612afde8f988131f210612333e0. (%chromium-version): Set to 87.0.4280.66. (ungoogled-chromium)[source]: Update hash. [arguments]: Adjust #:configure-flags for changes in 87. Enable Pipewire support in WebRTC. [native-inputs]: Add WAYLAND. [inputs]: Add PIPEWIRE and WAYLAND. (ungoogled-chromium/wayland): Implement as a wrapper over UNGOOGLED-CHROMIUM. * gnu/packages/patches/ungoogled-chromium-system-nspr.patch: Adjust for 87. Marius Bakke
2020-11-23gnu: eigen: Add upstream bugfix patch....This fixes the build of nanopolish, imp, and others. Reported by apteryx in #guix. * gnu/packages/algebra.scm (eigen)[source]: Add patch. * gnu/packages/patches/eigen-remove-openmp-error-counting.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-23gnu: python-pydot: Run tests....* gnu/packges/graphviz.scm (python-pydot)[source]: Add patch. [arguments]: Override check phase. [native-inputs]: Add graphviz. * gnu/packages/patches/python-pydot-regression-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Efraim Flashner
2020-11-23gnu: lsof: Make test failures fatal....* gnu/packages/lsof.scm (lsof)[source]: Add patch to make test suite failures stop the build. * gnu/packages/patches/lsof-fatal-test-failures.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-22gnu: ocaml-cairo2: Patch test phase....* gnu/local.mk (ocaml-cairo2-caml_ba_array_fix.patch): Add ref. * gnu/packages/ocaml.scm (ocaml-cairo2): Utilize patch. * gnu/packages/patches/ocaml-cairo2-caml_ba_array-fix.patch: Add file. Brett Gilio
2020-11-22Merge branch 'master' into stagingMarius Bakke
2020-11-21gnu: xpra: Update to 4.0.5....* gnu/packages/xorg.scm (xpra): Update to 4.0.5. [source]: Remove xpra-4.0.4-norequests.patch. * gnu/packages/patches/xpra-4.0.4-norequests.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice
2020-11-20gnu: grim: Remove obsolete patch....* gnu/packages/patches/grim-revert-output-rotation.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/image.scm (grim)[source](patches): Remove. Marius Bakke
2020-11-19gnu: gajim: Honour $GAJIM_PLUGIN_PATH....This allows Gajim to find plug-ins installed with Guix. Reported at <http://issues.guix.gnu.org/44730>. However, at the time of pushing both packaged plug-ins (gajim-omemo and gajim-openpgp) require an unstable version of Gajim and will not load. * gnu/packages/messaging.scm (gajim)[arguments]: Replace the ‘add-plugin-dirs’ substitution phase with a... [source]: ...patch that won't silently break in the future. * gnu/packages/patches/gajim-honour-GAJIM_PLUGIN_PATH.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-19Merge branch 'master' into stagingMarius Bakke
2020-11-18gnu: bitcoin-core: Update to 0.20.1....* gnu/packages/finance.scm (bitcoin-core): Update to 0.20.1. [source]: Remove obsolete patch. [native-inputs]: Add autoconf, automake and libtool. [inputs]: Remove protobuf. [arguments]: Add "set-no-git-flag" phase to indicate the build is not taking place within a git repository. * gnu/packages/patches/bitcoin-core-python-compat.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Signed-off-by: Christopher Baines <mail@cbaines.net> Simon South
2020-11-17gnu: icecat: Update to 78.5.0-guix0-preview1 [security fixes]....Includes fixes for CVE-2020-15999, CVE-2020-16012, CVE-2020-26951, CVE-2020-26953, CVE-2020-26956, CVE-2020-26958, CVE-2020-26959, CVE-2020-26960, CVE-2020-26961, CVE-2020-26965, CVE-2020-26966, and CVE-2020-26968. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. * gnu/packages/patches/icecat-makeicecat.patch: Adapt to new version. Mark H Weaver
2020-11-17Merge remote-tracking branch 'origin/version-1.2.0' into master...Conflicts: gnu/packages/bioinformatics.scm The python-pysam package fixed in master was kept instead of the update done in the version-1.2.0 branch. Maxim Cournoyer
2020-11-17gnu: tomb: Update to 2.8....Fixes CVE-2020-28638. * gnu/packages/crypto.scm (tomb): Update to 2.8 [source]: Remove obsolete patch. * gnu/packages/patches/tomb-fix-errors-on-open.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Eric Bavier
2020-11-16gnu: gcc-vc4: Update to commit 0fe4b83897341742f9df65797474cb0feab4b377....* gnu/packages/patches/gcc-6-fix-buffer-size.patch: New file. * gnu/packages/patches/gcc-6-fix-isl-includes.patch: New file. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/embedded.scm (gcc-vc4): Update to commit 0fe4b83897341742f9df65797474cb0feab4b377. [source]: Add the patches from above. Danny Milosavljevic
2020-11-16gnu: scribus: Update to 1.5.6....* gnu/packages/scribus.scm (scribus): Update to 1.5.6. [source]: Remove patch. [inputs]: Substitute python for python-2. * gnu/packages/patches/scribus-1.5.5-poppler-0.86-build-fix.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice
2020-11-15Merge branch 'master' into stagingMarius Bakke
2020-11-15gnu: multipath-tools: Update to 0.8.5....* gnu/packages/linux.scm (multipath-tools): Update to 0.8.5. [source]: Remove patch. [arguments]: Add a ‘skip-failing-tests’ phase. * gnu/packages/patches/multipath-tools-sans-systemd.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Tobias Geerinckx-Rice
2020-11-15gnu: perl-www-curl: Fix build with curl@7.69.1....* gnu/packages/web.scm (perl-www-curl)[source]: Add perl-www-curl-fix-struct-void.patch. * gnu/packages/patches/perl-www-curl-remove-symbol.patch: Update. * gnu/packages/patches/perl-www-curl-fix-struct-void.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Tobias Geerinckx-Rice
2020-11-14gnu: llvm-9: Standardize patch level....Having a non-standard (different than 1) patch level requirement means the patches cannot be composed easily from different origins. The following command was used to remove one level from the llvm-9 patches: sed -e 's|^--- a/|--- |' -e 's|^+++ b/|+++ |' \ gnu/packages/patches/llvm-9* -i * gnu/packages/llvm.scm (llvm-9)[source]: Drop the patch-flags field. Re-indent list of patches. * gnu/packages/patches/llvm-9-fix-bitcast-miscompilation.patch: Strip one level. * gnu/packages/patches/llvm-9-fix-lpad-miscompilation.patch: Likewise. * gnu/packages/patches/llvm-9-fix-scev-miscompilation.patch: Likewise. Maxim Cournoyer
2020-11-13gnu: glib: Graft patch to detect changes to the installed applications....Fixes <https://bugs.gnu.org/35594>. Reported by sirgazil <sirgazil@zoho.com> and others. * gnu/packages/patches/glib-appinfo-watch.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/glib.scm (glib)[replacement]: New field. (glib-with-gio-patch): New variable. (glib-with-documentation): Use 'package/inherit'. Ludovic Courtès
2020-11-12Merge branch 'version-1.2.0'Ludovic Courtès
2020-11-11gnu: icecat: Update to 78.4.1-guix0-preview1 [fixes CVE-2020-26950]....* gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. * gnu/packages/patches/icecat-makeicecat.patch: Adapt to new version. Mark H Weaver
2020-11-10gnu: oath-toolkit: Update to 2.6.3....* gnu/packages/authentication.scm (oath-toolkit): Update to 2.6.3. [source]: Remove obsolete patches. * gnu/packages/patches/oath-toolkit-glibc-compat.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Signed-off-by: Leo Famulari <leo@famulari.name> Simon Josefsson
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