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* gnu: Add ghc-lzma.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-lzma): New variable.
* gnu: Add ghc-cereal-conduit.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-cereal-conduit): New variable.
* gnu: Add ghc-atomic-write.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-atomic-write): New variable.
* gnu: Add ghc-chart-cairo.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-chart-cairo): New variable.
* gnu: Add ghc-cairo.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-cairo): New variable.
* gnu: ghc-regex: Fix build.Ricardo Wurmus2018-10-05
| | | | | * gnu/packages/haskell.scm (ghc-regex)[arguments]: Add build phase to relax version checks.
* gnu: ghc-http-conduit: Remove ghc-http-client from native-inputs.Ricardo Wurmus2018-10-05
| | | | | * gnu/packages/haskell-web.scm (ghc-http-conduit)[native-inputs]: Remove ghc-http-client.
* progress: Fix total size in "@ download-succeeded" traces.Ludovic Courtès2018-10-05
| | | | | | | | | | | | Fixes a regression introduced in 1d0be47ab680db938ac8da1ee65e1de91e198f67 whereby the total size for directories (coming from substitutes) would be 4KiB. This led the progress bar to go back to the start, typically. * guix/progress.scm (progress-reporter/trace): Add 'total'. In 'start', initialize it. Adjust 'report' to update it. Adjust 'stop' to prefer SIZE as the actual size and then TOTAL. Do not use the size of FILE as the total since that could be 4KiB when FILE is a directory.
* gnu: ruby-sass: Update to 3.6.0.Christopher Baines2018-10-05
| | | | | | * gnu/packages/ruby.scm (ruby-sass)[version]: Update to 3.6.0. [source]: Update sha256. [native-inputs]: Add ruby-mathn, as this is needed when using Ruby 2.5.
* gnu: Add ruby-mathn.Christopher Baines2018-10-05
| | | | * gnu/packages/ruby.scm (ruby-mathn): New variable.
* gnu: ruby-sass-spec: Fix spec expectation.Christopher Baines2018-10-05
| | | | | | | | This fixes building ruby-sass with Ruby 2.5. * gnu/packages/ruby.scm (ruby-sass-spec)[arguments]: Add patch-test phase to fix the expectation of one of the tests. Also change the comment regarding the tests not being run.
* gnu: ruby-term-ansicolor: Fix test for Ruby 2.5.Christopher Baines2018-10-05
| | | | | * gnu/packages/ruby.scm (ruby-term-ansicolor)[arguments]: Add new fix-test phase to fix a test that fails under Ruby 2.5.
* gnu: ruby-shindo: Remove -rubygems flags.Christopher Baines2018-10-05
| | | | | | | These have been removed in Ruby 2.5. * gnu/packages/ruby.scm (ruby-shindo)[arguments]: Change fix-tests phase to also remove the -rubygems flags.
* gnu: bioruby: Update to 1.5.2.Christopher Baines2018-10-05
| | | | | | This works with Ruby 2.5. * gnu/packages/bioinformatics.scm (bioruby): Update to 1.5.2.
* gnu: gnucash-docs: Update to 3.3.Kei Kebreau2018-10-05
| | | | | | | The documentation on SourceForge is now located in the same directory as the source code. * gnu/packages/gnucash.scm (gnucash-docs): Update to 3.3.
* gnu: gnucash: Update to 3.3.Kei Kebreau2018-10-05
| | | | | | | | | * gnu/packages/patches/gnucash-disable-failing-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/gnucash.scm (gnucash): Update to 3.3. [source]: Add patch. [arguments]: Add 'set-env-vars', 'glib-or-gtk-compile-schemas', and 'glib-or-gtk-wrap' phases.
* gnu: Add bastet.Tobias Geerinckx-Rice2018-10-05
| | | | | | | * gnu/packages/games.scm (bastet): New public variable. * gnu/packages/patches/bastet-change-source-of-unordered_set.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
* gnu: fdroidserver: Update to 1.0.10.Tobias Geerinckx-Rice2018-10-05
| | | | * gnu/packages/android.scm (fdroidserver): Update to 1.0.10.
* gnu: audacity: Don't use unstable tarball.Tobias Geerinckx-Rice2018-10-05
| | | | * gnu/packages/audio.scm (audacity)[source]: Use GIT-FETCH and GIT-FILE-NAME.
* gnu: filezilla: Update to 3.37.4.Tobias Geerinckx-Rice2018-10-05
| | | | * gnu/packages/ftp.scm (filezilla): Update to 3.37.4.
* gnu: libfilezilla: Update to 0.14.0.Tobias Geerinckx-Rice2018-10-05
| | | | * gnu/packages/ftp.scm (libfilezilla): Update to 0.14.0.
* gnu: samtools-0.1: Adjust to match changes in samtools.Ricardo Wurmus2018-10-05
| | | | | * gnu/packages/bioinformatics.scm (samtools-0.1)[arguments]: Override make flags.
* gnu: deeptools: Update to 3.1.2.Ricardo Wurmus2018-10-05
| | | | | | | * gnu/packages/bioinformatics.scm (deeptools): Update to 3.1.2. [source]: Fetch from git. [arguments]: Delete reset-gzip-timestamps phase. [inputs]: Add python-plotly.
* gnu: python-pysam: Update to 0.15.1.Ricardo Wurmus2018-10-05
| | | | | | | * gnu/packages/bioinformatics.scm (python-pysam): Update to 0.15.1. [source]: Fetch from git. [arguments]: Delete tests requiring internet access; use "invoke". [inputs]: Add curl.
* gnu: python-plotly: Add python-pandas to inputs.Ricardo Wurmus2018-10-05
| | | | | * gnu/packages/graph.scm (python-plotly)[propagated-inputs]: Add python-pandas.
* gnu: bcftools: Update to 1.9.Ricardo Wurmus2018-10-05
| | | | | * gnu/packages/bioinformatics.scm (bcftools): Update to 1.9. [arguments]: Remove obsolete make flags.
* gnu: samtools: Update to 1.9.Ricardo Wurmus2018-10-05
| | | | | | * gnu/packages/bioinformatics.scm (samtools): Update to 1.9. [origin]: Remove bundled htslib sources. [arguments]: Remove obsolete make-flags.
* gnu: htslib: Update to 1.9.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/bioinformatics.scm (htslib): Update to 1.9.
* gnu: icecat: Add fixes from mozilla-esr60 [security fixes].Mark H Weaver2018-10-04
| | | | | | | Includes fixes for CVE-2018-12386 and CVE-2018-12387. * gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the upstream mozilla-esr60 repository.
* gnu: linux-libre: Update to 4.18.12.Mark H Weaver2018-10-04
| | | | | * gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.12. (%linux-libre-hash): Update hash.
* gnu: linux-libre@4.14: Update to 4.14.74.Mark H Weaver2018-10-04
| | | | | * gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.74. (%linux-libre-4.14-hash): Update hash.
* gnu: linux-libre@4.9: Update to 4.9.131.Mark H Weaver2018-10-04
| | | | * gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.131.
* gnu: petsc-openmpi: Configure with support for MUMPS solver.Paul Garlick2018-10-04
| | | | | | | | | * gnu/packages/maths.scm (petsc-openmpi)[inputs]: Add metis, mumps-openmpi, scalapack and pt-scotch. [arguments]: Add "--with-PACKAGENAME=1" flags. Move 'mpi-setup' phase ahead of 'configure' phase. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: hiawatha: Set sane run-time directory defaults.Tobias Geerinckx-Rice2018-10-04
| | | | | | * gnu/packages/web.scm (hiawatha)[arguments]: Set sane default directories. Replace the 'remove-empty-dirs' phase with a 'install-no-empty-directories' one.
* gnu: hwloc: Update to 2.0.2.Tobias Geerinckx-Rice2018-10-04
| | | | * gnu/packages/mpi.scm (hwloc): Update to 2.0.2.
* gnu: Add nsd.Tobias Geerinckx-Rice2018-10-04
| | | | * gnu/packages/dns.scm (nsd): New public variable.
* gnu: guile-next: Update to commit 6f3357b0df64c4be17e72079864c09a542f1c779.David Thompson2018-10-04
| | | | | * gnu/packages/guile.scm (guile-next): Update to commit 6f3357b0df64c4be17e72079864c09a542f1c779.
* gnu: guile-next: Add the correct native search paths.David Thompson2018-10-04
| | | | * gnu/packages/guile.scm (guile-next): Add native search paths for version 3.0.
* gnu: hiawatha: Support HTTP/2.Tobias Geerinckx-Rice2018-10-04
| | | | | | * gnu/packages/web.sck (hiawatha)[arguments]: USE_SYSTEM_NGHTTP2 to ENABLE_HTTP2. [inputs]: Add nghttp2:lib.
* gnu: hiawatha: Update to 10.8.3.Tobias Geerinckx-Rice2018-10-04
| | | | | | | * gnu/packages/web.scm (hiawatha): Update to 10.8.3. [source]: Also delete bundled copy of nghttp2. [inputs]: Use mbedtls-for-hiawatha instead of vanilla mbedtls-apache. * gnu/packages/tls.scm (mbedtls-for-hiawatha): New public variable.
* gnu: mbedtls-apache: Update to 2.13.0 [security fixes].Tobias Geerinckx-Rice2018-10-04
| | | | | * gnu/packages/tls.scm (mbedtls-apache): Update to 2.13.0. [native-inputs]: Add python.
* gnu: geos: Update to 3.7.0.Arun Isaac2018-10-04
| | | | * gnu/packages/geo.scm (geos): Update to 3.7.0.
* gnu: hexedit: Update to 1.4.2.Tobias Geerinckx-Rice2018-10-04
| | | | | | * gnu/packages/hexedit.scm (hexedit): Update to 1.4.2. [source]: Use the author's more up-to-date git repository. [native-inputs]: Add autoconf and automake.
* gnu: html-xml-utils: Update to 7.7.Tobias Geerinckx-Rice2018-10-04
| | | | * gnu/packages/xml.scm (html-xml-utils): Update to 7.7.
* gnu: perl-xml-feed: Update to 0.54.Tobias Geerinckx-Rice2018-10-04
| | | | * gnu/packages/xml.scm (perl-xml-feed): Update to 0.54.
* gnu: guix: Update to 1d0be47.Ludovic Courtès2018-10-04
| | | | * gnu/packages/package-management.scm (guix): Update to 1d0be47.
* progress: Generate valid 'download-progress' traces when the size is unknown.Ludovic Courtès2018-10-04
| | | | | | | | | | Fixes <https://bugs.gnu.org/32895>. Reported by Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>. * guix/progress.scm (progress-reporter/trace): In 'stop', make sure SIZE is an integer. Previously we'd generate a "@ download-progress" trace with #f for the 'transferred' number when downloading files whose size is not known in advance.
* gnu: escpr: Update to 1.6.30.Diego Nicola Barbato2018-10-04
| | | | | | * gnu/packages/cups.scm (escpr): Update to 1.6.30. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: opencv: Update to 3.4.3.Björn Höfling2018-10-04
| | | | | | | | [[PGP Signed Part:Good signature from BF286CB6593E5FFD Björn Höfling <bjoern.hoefling@bjoernhoefling.de> (trust undefined) created at 2018-10-03T22:28:20+0200 using DSA]] * gnu/packages/image-processing.scm (opencv): Update to 3.4.3. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: r-acclma: Fix uses of @acronym in description.Ludovic Courtès2018-10-04
| | | | | | * gnu/packages/cran.scm (r-acclma)[description]: Fix order of arguments to @acronym. The wrong order was causing 'stexi->shtml' to fail (match error).
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