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Author SHA1 Message Date
Ricardo Wurmus 32b7ccf9b4
gnu: pigx-chipseq: Update to 0.0.8. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.8.
[inputs]: Add python-magic, python-xlrd, and trim-galore.
[arguments]: Disable tests.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 2915221bcb
gnu: pigx-scrnaseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 9dcb4d22a4
gnu: pigx-bsseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus fd757a8f21
gnu: pigx-chipseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 1a29fc3ff9
gnu: pigx-rnaseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:54 +01:00
Ricardo Wurmus 8c6117ee22
gnu: Add ghc-pandoc-citeproc-with-pandoc-1. 
* gnu/packages/haskell.scm (ghc-pandoc-citeproc-with-pandoc-1): New variable.
 2018-03-19 11:07:54 +01:00
Mark H Weaver 38ef437b0c
gnu: font-dejavu: Return #t from all phases. 
* gnu/packages/fonts.scm (font-dejavu)[arguments]: Return #t from
the 'install-conf' phase.
 2018-03-18 23:30:35 -04:00
Mark H Weaver b5e530198a
gnu: qpdf: Return #t from all phases. 
* gnu/packages/pdf.scm (qpdf)[arguments]: Return #t from 'patch-paths' phase.
 2018-03-18 23:30:33 -04:00
Mark H Weaver 56f31a9fd5
gnu: guile-gdbm-ffi: Add support for gdbm-1.14. 
* gnu/packages/patches/guile-gdbm-ffi-support-gdbm-1.14.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

* gnu/packages/guile.scm (guile-gdbm-ffi)[inputs]: Move above arguments.  Add
the patch, and the 'patch' program.
[propagated-inputs]: Move above arguments.
[arguments]: In the builder, add code to apply the patch.
 2018-03-18 23:30:31 -04:00
Mark H Weaver 07e36357a5
gnu: guile-gdbm-ffi: Use 'invoke'. 
* gnu/packages/guile.scm (guile-gdbm-ffi)[arguments]: Use 'invoke'
instead of 'system*'.
 2018-03-18 23:30:28 -04:00
Mark H Weaver 74c164e000
gnu: cups: Return #t from all phases. 
* gnu/packages/cups.scm (cups, cups-minimal): Return #t from all phases.
 2018-03-18 23:30:01 -04:00
Marius Bakke 4eade64706
Merge branch 'master' into staging 2018-03-19 03:50:39 +01:00
Eric Bavier be95bcf088
git-download: Fix recursive checkouts. 
* guix/git-download.scm (git-fetch)<build>: Fix match on INPUTS, which may
contain package outputs.
 2018-03-18 20:00:44 -05:00
Vijayalakshmi Vedantham 109b2f7c93
gnu: Add r-abbyyr. 
* gnu/packages/cran.scm (r-abbyyr): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-03-19 01:06:41 +01:00
Ludovic Courtès 71e08fde28
glob: Add an extra glob pattern compilation stage. 
* guix/glob.scm (compile-glob-pattern): Rename to...
(string->sglob): ... this.
(compile-sglob, string->compiled-sglob): New procedures.
(glob-match?): Replace '?, 'range, and 'set with a single clause.
* tests/glob.scm (test-compile-glob-pattern): Rename to...
(test-string->sglob): ... this.  Adjust accordingly.
(test-glob-match): Use 'string->compiled-sglob' instead of
'compile-glob-pattern'.
* gnu/build/linux-modules.scm (read-module-aliases): Use
'string->compiled-sglob' instead of 'compile-glob-pattern'.
 2018-03-18 22:57:17 +01:00
Ludovic Courtès e914b398af
glob: Support square brackets in patterns. 
* guix/glob.scm (wildcard-indices): Remove.
(parse-bracket): New procedure.
(compile-glob-pattern): Rewrite.  Support square brackets for sets and
ranges.
(glob-match?): Support sets and ranges.
* tests/glob.scm (test-compile-glob-pattern)
(test-glob-match): New macros.
Use them to rewrite the existing tests, and add new tests.
 2018-03-18 22:35:36 +01:00
Ludovic Courtès 675e81a082
linux-modules: 'load-linux-module*' honors BLACK-LIST in recursive calls. 
* gnu/build/linux-modules.scm (load-linux-module*): Pass BLACK-LIST in
recursive call.
 2018-03-18 22:35:27 +01:00
Ludovic Courtès a57df67b59
linux-modules: Add 'current-kernel-directory'. 
* gnu/build/linux-modules.scm (current-kernel-directory): New procedure.
(current-alias-file): Use it.
 2018-03-18 22:35:03 +01:00
Ludovic Courtès 248db51c7e
vm: Display a backtrace upon error by default. 
* gnu/system/vm.scm (expression->derivation-in-linux-vm): Pass
 #:on-error to 'base-initrd'.
 2018-03-18 22:34:40 +01:00
Ludovic Courtès 17cdd3d0fe
tests: elpa: Don't actually download files. 
* tests/elpa.scm (eval-test-with-elpa): Mock 'url-fetch'.
 2018-03-18 22:33:41 +01:00
Ludovic Courtès 9bb1838c3f
import: elpa: Return 'license:gpl3+ for ELPA only. 
Fixes <https://bugs.gnu.org/30836>.
Reported by Konrad Hinsen <konrad.hinsen@fastmail.net>.

* guix/import/elpa.scm (elpa-package->sexp): Add LICENSE parameter and
honor it.
(elpa->guix-package): Pass 'license:gpl3+ only when REPO is 'gnu.
 2018-03-18 22:26:34 +01:00
Ludovic Courtès e5425ed950
import: elpa: Adjust test for HTTPS URLs. 
This is a followup to 44dd3d579d.

* tests/elpa.scm (eval-test-with-elpa): Use https.
 2018-03-18 22:25:54 +01:00
Sohom Bhattacharjee 14f2105dc6
gnu: youtube-dl: Update to 2018.03.14. 
* gnu/packages/video.scm (youtube-dl): Update to 2018.03.14.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-03-18 18:47:16 +01:00
Ricardo Wurmus e923cee1b9
gnu: wayland: Disable failing tests. 
* gnu/packages/freedesktop.scm (wayland)[arguments]: Disable tests that fail
in the build environment.
 2018-03-18 17:07:55 +01:00
Christopher Baines 72406062b9
gnu: shotwell: Update to 0.28.0. 
* gnu/packages/gnome.scm (shotwell): Update to 0.28.0.
 2018-03-18 10:35:23 +00:00
Ben Woodcroft e218b0c8b3
gnu: Add ruby-ruby-engine. 
* gnu/packages/ruby.scm (ruby-ruby-engine): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft 670ee20a57
gnu: Add ruby-rake. 
* gnu/packages/ruby.scm (ruby-rake): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft d64ebebd8e
gnu: Add ruby-erubis. 
* gnu/packages/ruby.scm (ruby-erubis): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft b88502c95c
gnu: Add ruby-sporkmonger-rack-mount. 
* gnu/packages/ruby.scm (ruby-sporkmonger-rack-mount): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft c4550f7568
gnu: Add ruby-creole. 
* gnu/packages/ruby.scm (ruby-creole): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft 6ef8525607
gnu: Add ruby-contest. 
* gnu/packages/ruby.scm (ruby-contest): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft a0a7e6903a
gnu: Add ruby-rack-protection. 
* gnu/packages/ruby.scm (ruby-rack-protection): New variable.
 2018-03-18 10:23:52 +00:00
Ben Woodcroft 20a0f80414
gnu: Add ruby-rack-test. 
* gnu/packages/ruby.scm (ruby-rack-test): New variable.
 2018-03-18 10:23:51 +00:00
Ben Woodcroft 34138e42ba
gnu: Add ruby-asciidoctor. 
* gnu/packages/ruby.scm (ruby-asciidoctor): New variable.
 2018-03-18 10:23:51 +00:00
Ben Woodcroft 63e07468b3
gnu: Add ruby-asciimath. 
* gnu/packages/maths.scm (ruby-asciimath): New variable.
 2018-03-18 10:23:49 +00:00
Mark H Weaver 171a117c61
build-system/python: Fix deletion of .egg-info dirs created by tests. 
* guix/build/python-build-system.scm (check): Use 'string=?' to compare
strings, not 'eqv?'.
 2018-03-18 00:49:05 -04:00
Mark H Weaver 1e62645402
build-system/python: Return #t from all phases. 
* guix/build/python-build-system.scm (build, install, wrap): Return #t.
(check): Return #t and remove vestigial plumbing.
 2018-03-18 00:49:03 -04:00
Mark H Weaver 953468743f
gnu: gobject-introspection: Disable parallel build. 
* gnu/packages/glib.scm (gobject-introspection)[arguments]: New field.
 2018-03-18 00:49:01 -04:00
Mark H Weaver 196fb12cb8
gnu: boost: Simplify phases. 
* gnu/packages/boost.scm (boost)[arguments]: Remove unneeded '#t's from
'configure', 'build', and 'install' phases.
 2018-03-18 00:48:55 -04:00
Mark H Weaver 81f6bf2d50
gnu: glib: Return #t from all phases. 
* gnu/packages/glib.scm (glib)[arguments]: In the 'check' phase, use
'for-each' instead to avoid assuming that 'disable' will return a true value.
Return #t from the 'pre-build' and 'check' phases.
 2018-03-17 22:45:59 -04:00
Mark H Weaver cc4c8a576c
gnu: icecat: Fix CVE-2018-{5146,5147}, etc. 
Includes fixes for CVE-2018-5146 and CVE-2018-5147.

* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from
the upstream mozilla-esr52 repository.
 2018-03-17 21:44:23 -04:00
Mark H Weaver eed6985fc6
gnu: tk: Return #t from all phases. 
* gnu/packages/tcl.scm (tk)[arguments]: Return #t from 'pre-configure' phase.
 2018-03-17 20:50:45 -04:00
Mark H Weaver 4a3ee3fbb1
gnu: giflib: Return #t from all phases. 
* gnu/packages/image.scm (giflib)[arguments]: Return #t from custom phases.
 2018-03-17 20:50:43 -04:00
Mark H Weaver d009c44a58
gnu: dbus: Detect failures in the install phase. 
* gnu/packages/glib.scm (dbus)[arguments]: Use 'invoke' instead of 'system*'.
 2018-03-17 20:49:05 -04:00
Marius Bakke 7ace97395f
Merge branch 'master' into staging 2018-03-18 01:09:25 +01:00
Mark H Weaver b4291db238
gnu: python: Return #t from all phases. 
* gnu/packages/python.scm (python-3.6)[arguments]: Return #t from
the 'rebuild-bytecode' phase.
 2018-03-17 19:55:04 -04:00
Marius Bakke ba57d602e3
gnu: Switch from xineramaproto to xorgproto. 
* gnu/packages/xorg.scm (xineramaproto)[properties]: Mark as superseded by
XORGPROTO.
(libxinerama)[propagated-inputs]: Replace XINERAMAPROTO with XORGPROTO.
(xorg-server)[propagated-inputs]: Remove XINERAMAPROTO.
 2018-03-18 00:19:57 +01:00
Marius Bakke 5b6f1be783
gnu: Switch from xf86vidmodeproto to xorgproto. 
* gnu/packages/xorg.scm (xf86vidmodeproto)[properties]: Mark as superseded by
XORGPROTO.
(libxxf86vm)[propagated-inputs]: Replace XF86VIDMODEPROTO with XORGPROTO.
(xorg-server)[inputs]: Remove XF86VIDMODEPROTO.
 2018-03-18 00:19:57 +01:00
Marius Bakke d7f3769195
gnu: Switch from xf86bigfontproto to xorgproto. 
* gnu/packages/xorg.scm (xf86bigfontproto)[properties]: Mark as superseded by
XORGPROTO.
(xorg-server)[inputs]: Remove XF86BIGFONTPROTO.
 2018-03-18 00:19:57 +01:00
Marius Bakke ab667712ed
gnu: Switch from xf86dgaproto to xorgproto. 
* gnu/packages/xorg.scm (libxxf86dga, xf86-video-glint, xf86-video-neomagic,
xf86-video-tga, xf86-video-trident, xf86-video-voodoo)[inputs]: Replace
XF86DGAPROTO with XORGPROTO.
(xf86driproto)[properties]: Mark as superseded by XORGPROTO.
(xf86-video-qxl, xf86-video-sis, xorg-server)[inputs]: Remove XF86DGAPROTO.
 2018-03-18 00:19:57 +01:00