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* gnu: Add ngless.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/bioinformatics.scm (ngless): New variable.
* gnu: Add ghc-safeio.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-safeio): New variable.
* gnu: Add ghc-file-embed.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-file-embed): New variable.
* gnu: Add ghc-configurator.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-configurator): New variable.
* gnu: Add ghc-bytestring-lexing.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-bytestring-lexing): New variable.
* gnu: Add ghc-inline-c-cpp.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-inline-c-cpp): New variable.
* gnu: Add ghc-safe-exceptions.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-safe-exceptions): New variable.
* gnu: Add ghc-inline-c.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-inline-c): New variable.
* gnu: Add ghc-raw-string-qq.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-raw-string-qq): New variable.
* gnu: Add ghc-hpack.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-hpack): New variable.
* gnu: Add ghc-interpolate.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-interpolate): New variable.
* gnu: Add ghc-conduit-algorithms.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-conduit-algorithms): New variable.
* gnu: Add ghc-pqueue.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-pqueue): New variable.
* gnu: Add ghc-bzlib-conduit.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-bzlib-conduit): New variable.
* gnu: Add ghc-lzma-conduit.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-lzma-conduit): New variable.
* gnu: Add ghc-bindings-dsl.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-bindings-dsl): New variable.
* gnu: Add ghc-stm-conduit.Ricardo Wurmus2018-10-05
| | | | * gnu/packages/haskell.scm (ghc-stm-conduit): New variable.
* 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.ruby-fixesChristopher 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>
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