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43156 Commits

Author SHA1 Message Date
Ricardo Wurmus 4675b3cfa3
gnu: Add r-simpleaffy. 
* gnu/packages/bioconductor.scm (r-simpleaffy): New variable.
 2019-03-30 08:55:45 +01:00
Ricardo Wurmus e99380d67b
gnu: Add r-gcrma. 
* gnu/packages/bioconductor.scm (r-gcrma): New variable.
 2019-03-30 08:55:45 +01:00
Ricardo Wurmus 303f2ed1c6
gnu: Add r-yapsa. 
* gnu/packages/bioconductor.scm (r-yapsa): New variable.
 2019-03-30 08:55:45 +01:00
Ricardo Wurmus 28098414d0
gnu: Add r-somaticsignatures. 
* gnu/packages/bioconductor.scm (r-somaticsignatures): New variable.
 2019-03-30 08:55:45 +01:00
Ricardo Wurmus 398c4a9347
gnu: Add r-gtrellis. 
* gnu/packages/bioconductor.scm (r-gtrellis): New variable.
 2019-03-30 08:55:45 +01:00
Ricardo Wurmus 9563dd5599
gnu: Add r-pmcmr. 
* gnu/packages/cran.scm (r-pmcmr): New variable.
 2019-03-30 08:55:45 +01:00
Mark H Weaver bc91562939
gnu: gtk+: Graft upstream fix for crashes in Emacs and IceCat. 
Fixes <https://bugs.gnu.org/34454>.

* gnu/packages/patches/gtk3-fix-deprecation-macro-use.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (gtk+/fixed): New variable.
(gtk+)[replacement]: New field.
 2019-03-30 02:34:24 -04:00
Tobias Geerinckx-Rice c948cf9092
gnu: Add font-iosevka-slab. 
The ’slab’ variants of Iosevka were moved to a separate archive with
version 2.0.0.

* gnu/packages/fonts.scm (font-iosevka-slab): New public variable.
 2019-03-29 21:09:11 +01:00
Tobias Geerinckx-Rice 785747a974
gnu: font-iosevka: Update to 2.2.0. 
* gnu/packages/fonts.scm (font-iosevka): Update to 2.2.0.
 2019-03-29 21:00:23 +01:00
Ricardo Wurmus 51e98f7e0f
gnu: Add r-yamss. 
* gnu/packages/bioconductor.scm (r-yamss): New variable.
 2019-03-29 19:28:11 +01:00
Ricardo Wurmus 5cfa4bff69
gnu: Add r-ebimage. 
* gnu/packages/bioconductor.scm (r-ebimage): New variable.
 2019-03-29 19:28:03 +01:00
Ricardo Wurmus ffe7029bab
gnu: Add r-aucell. 
* gnu/packages/bioconductor.scm (r-aucell): New variable.
 2019-03-29 18:10:46 +01:00
Ricardo Wurmus f31e10f82e
gnu: Add r-allelicimbalance. 
* gnu/packages/bioconductor.scm (r-allelicimbalance): New variable.
 2019-03-29 18:07:17 +01:00
Ricardo Wurmus adf7d8135b
gnu: Add r-annotationtools. 
* gnu/packages/bioconductor.scm (r-annotationtools): New variable.
 2019-03-29 18:05:45 +01:00
Ricardo Wurmus 0b91b7b969
gnu: Add r-annotationfuncs. 
* gnu/packages/bioconductor.scm (r-annotationfuncs): New variable.
 2019-03-29 17:49:54 +01:00
Ricardo Wurmus 9bf4bb19c9
gnu: Add r-abaenrichment. 
* gnu/packages/bioconductor.scm (r-abaenrichment): New variable.
 2019-03-29 17:46:33 +01:00
Ricardo Wurmus 3972cfce6a
gnu: Add r-gofuncr. 
* gnu/packages/bioconductor.scm (r-gofuncr): New variable.
 2019-03-29 17:46:33 +01:00
Ricardo Wurmus 692bce1595
gnu: Add r-abadata. 
* gnu/packages/bioconductor.scm (r-abadata): New variable.
 2019-03-29 17:46:33 +01:00
Ricardo Wurmus 1fab2cf811
gnu: Add r-mapplots. 
* gnu/packages/cran.scm (r-mapplots): New variable.
 2019-03-29 17:43:25 +01:00
Ricardo Wurmus 32e0f906d7
gnu: Add r-atacseqqc. 
* gnu/packages/bioconductor.scm (r-atacseqqc): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus e5bff3079d
gnu: Add r-genomicscores. 
* gnu/packages/bioconductor.scm (r-genomicscores): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus 2a72ef561b
gnu: Add r-motifstack. 
* gnu/packages/bioconductor.scm (r-motifstack): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus 229f97c37a
gnu: Add r-motiv. 
* gnu/packages/bioconductor.scm (r-motiv): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus 051e8e1a5b
gnu: Add r-rgadem. 
* gnu/packages/bioconductor.scm (r-rgadem): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus c54ab337bc
gnu: Add r-preseqr. 
* gnu/packages/cran.scm (r-preseqr): New variable.
 2019-03-29 17:13:45 +01:00
Ricardo Wurmus 41aab7d186
gnu: Add r-bacon. 
* gnu/packages/bioconductor.scm (r-bacon): New variable.
 2019-03-29 17:13:41 +01:00
Ludovic Courtès 9398152ad1
gnu: php: Fix typo. 
Regression introduced in e8cfce439a.

* gnu/packages/php.scm (php)[arguments]: Add missing 'else' branch of
the 'if'.  Change first argument to 'string-prefix?' to match GNU
triplets as well.
 2019-03-29 15:35:54 +01:00
Ludovic Courtès 46fc7cafcf
doc: Fix invalid uses of @ref. 
* doc/guix.texi (Invoking guix pull): Use @xref instead of @ref at the
beginning of sentences.
 2019-03-29 15:35:54 +01:00
Efraim Flashner 8339ccac5f
gnu: python-faiss: Fix building on non-Intel architectures. 
* gnu/packages/graph.scm (python-faiss)[arguments]: Adjust custom
'build-swig phase to change build flags for different archictures.
 2019-03-29 17:08:05 +03:00
Efraim Flashner 3776dc094c
gnu: faiss: Fix building on non-Intel architectures. 
* gnu/packages/graph.scm (faiss)[source]: Add snippet to wrap Intel
specific headers.
[arguments]: Adjust custom 'prepare-build phase to adjust compile flags
for different architectures.
 2019-03-29 17:08:02 +03:00
Ricardo Wurmus 4774677228
gnu: stepmania: Fix all instances of accessing application data. 
This is a follow-up to commit 45aba232ab.

* gnu/packages/games.scm (stepmania)[arguments]: Rename phase
ensure-gtk-module-can-be-found to ensure-application-files-can-be-found and
fix remaining instances of application data access.
 2019-03-29 14:14:19 +01:00
Leo Famulari 47131ebbc9
gnu: Stellarium: Update to 0.19.0. 
* gnu/packages/astronomy.scm (stellarium): Update to 0.19.0.
[arguments]: Remove obsolete 'patch-tests' phase.
 2019-03-29 02:37:28 -04:00
Ricardo Wurmus 45aba232ab
gnu: stepmania: Fix loading of gtk module. 
Fixes <https://bugs.gnu.org/34854>.

Suggested by Nicolas Goaziou.

* gnu/packages/games.scm (stepmania)[arguments]: Add phase
"ensure-gtk-module-can-be-found".
 2019-03-29 07:14:17 +01:00
Ricardo Wurmus d656aea0ef
gnu: zynaddsubfx: Update to 3.0.4. 
* gnu/packages/music.scm (zynaddsubfx): Update to 3.0.4.
 2019-03-29 06:48:13 +01:00
Ricardo Wurmus 59d331f16a
gnu: Add r-abseqr. 
* gnu/packages/bioconductor.scm (r-abseqr): New variable.
 2019-03-29 06:35:57 +01:00
Ricardo Wurmus f084e41e2c
gnu: Add r-flexdashboard. 
* gnu/packages/cran.scm (r-flexdashboard): New variable.
 2019-03-29 06:35:48 +01:00
Ricardo Wurmus d2aa2d2451
gnu: r-png: Move to (gnu packages cran). 
* gnu/packages/image.scm (r-png): Move from here...
* gnu/packages/cran.scm (r-png): ...to here.
 2019-03-29 06:34:39 +01:00
Ricardo Wurmus d8a28332c5
gnu: Add r-ggcorrplot. 
* gnu/packages/cran.scm (r-ggcorrplot): New variable.
 2019-03-29 05:39:35 +01:00
Nicolas Goaziou 4e43e3175e
gnu: Add openclonk. 
* gnu/packages/games.scm (openclonk): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-29 05:34:45 +01:00
Ricardo Wurmus e040413e0a
gnu: r-cairo: Update to 1.5-10. 
* gnu/packages/statistics.scm (r-cairo): Update to 1.5-10.
[inputs]: Add zlib.
 2019-03-29 05:34:45 +01:00
Tobias Geerinckx-Rice 07de94d6a4
gnu: hyperrogue: Don't use NAME in hyperrogue-data. 
* gnu/packages/games.scm (hyperrogue)[native-inputs]: Hard code NAME in
hyperrogue-data source URI.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice 4959856443
gnu: quadrapassel: Don't use NAME in source URI. 
* gnu/packages/games.scm (quadrapassel)[source]: Hard-code NAME.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice 5b35bdaaa5
gnu: libmanette: Don't use NAME in source URI. 
* gnu/packages/games.scm (libmanette)[source]: Hard-code NAME.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice 98e27db5bb
gnu: frotz-dumb-terminal: Merge strings in URI. 
* gnu/packages/games.scm (frotz-dumb-terminal)[source]: Merge separate
string components, probably from a naive ’s/name/"name"/’ substitution.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice e2c9f9de9f
gnu: frotz: Don't use NAME in source URI. 
* gnu/packages/games.scm (frotz)[source]: Hard-code NAME.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice a6ac8e0b31
gnu: fortune-mod: Don't use NAME in source COMMIT. 
* gnu/packages/games.scm (fortune-mod)[source]: Hard-code NAME.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice 30b8b2013b
gnu: lugaru: Don't use NAME in source URI. 
* gnu/packages/games.scm (lugaru)[source]: Hard-code NAME.
 2019-03-29 04:07:44 +01:00
Tobias Geerinckx-Rice 146a4459db
gnu: no-more-secrets: Don't use unstable tarball. 
* gnu/packages/games.scm (no-more-secrets)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
 2019-03-29 04:07:43 +01:00
Tobias Geerinckx-Rice a01aea7d66
gnu: hyperrogue: Don't use NAME in source URI. 
* gnu/packages/games.scm (hyperrogue)[source]: Hard-code NAME.
 2019-03-29 04:07:43 +01:00
Tobias Geerinckx-Rice ed9bcf50d3
gnu: mrrescue: Don't use NAME in source URI. 
* gnu/packages/games.scm (mrrescue)[source]: Hard-code NAME.
 2019-03-29 04:07:43 +01:00