a6402a7fee
gnu: r-msnid: Update to 1.28.0.
...
* gnu/packages/bioconductor.scm (r-msnid): Update to 1.28.0.
2021-11-07 22:34:39 +00:00
35e1bdc5b8
gnu: r-msnbase: Update to 2.20.0.
...
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.20.0.
2021-11-07 22:34:39 +00:00
b96f76aff0
gnu: r-mutationalpatterns: Update to 3.4.0.
...
* gnu/packages/bioconductor.scm (r-mutationalpatterns): Update to 3.4.0.
[propagated-inputs]: Add r-rcolorbrewer.
2021-11-07 22:34:39 +00:00
d4a0101ad9
gnu: r-methylkit: Update to 1.20.0.
...
* gnu/packages/bioconductor.scm (r-methylkit): Update to 1.20.0.
2021-11-07 22:34:39 +00:00
0465cc8251
gnu: r-limma: Update to 3.50.0.
...
* gnu/packages/bioconductor.scm (r-limma): Update to 3.50.0.
2021-11-07 22:34:39 +00:00
a0cc78a554
gnu: r-keggrest: Update to 1.34.0.
...
* gnu/packages/bioconductor.scm (r-keggrest): Update to 1.34.0.
2021-11-07 22:34:39 +00:00
1fa012822d
gnu: r-interactivedisplaybase: Update to 1.32.0.
...
* gnu/packages/bioconductor.scm (r-interactivedisplaybase): Update to 1.32.0.
2021-11-07 22:34:39 +00:00
b6bd74cefb
gnu: r-impute: Update to 1.68.0.
...
* gnu/packages/bioconductor.scm (r-impute): Update to 1.68.0.
2021-11-07 22:34:39 +00:00
eeeb38d569
gnu: r-rhtslib: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-rhtslib): Update to 1.26.0.
2021-11-07 22:34:39 +00:00
bcd10420cc
gnu: r-hpar: Update to 1.36.0.
...
* gnu/packages/bioconductor.scm (r-hpar): Update to 1.36.0.
2021-11-07 22:34:39 +00:00
df5553ee14
gnu: r-gseabase: Update to 1.56.0.
...
* gnu/packages/bioconductor.scm (r-gseabase): Update to 1.56.0.
2021-11-07 22:34:39 +00:00
8148c6ba72
gnu: r-gostats: Update to 2.60.0.
...
* gnu/packages/bioconductor.scm (r-gostats): Update to 2.60.0.
2021-11-07 22:34:39 +00:00
98c8e7f735
gnu: r-genomicranges: Update to 1.46.0.
...
* gnu/packages/bioconductor.scm (r-genomicranges): Update to 1.46.0.
2021-11-07 22:34:39 +00:00
36ea351603
gnu: r-genomicfiles: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-genomicfiles): Update to 1.30.0.
2021-11-07 22:34:38 +00:00
60d5b89717
gnu: r-genomicfeatures: Update to 1.46.1.
...
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.46.1.
2021-11-07 22:34:38 +00:00
f599ef1cc4
gnu: r-genomicalignments: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-genomicalignments): Update to 1.30.0.
2021-11-07 22:34:38 +00:00
9122892ec9
gnu: r-genomeinfodb: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.30.0.
2021-11-07 22:34:38 +00:00
251e6950d8
gnu: r-genomation: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-genomation): Update to 1.26.0.
2021-11-07 22:34:38 +00:00
38d13a6747
gnu: r-geneoverlap: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-geneoverlap): Update to 1.30.0.
2021-11-07 22:34:38 +00:00
7e80f6fb57
gnu: r-genefilter: Update to 1.76.0.
...
* gnu/packages/bioconductor.scm (r-genefilter): Update to 1.76.0.
2021-11-07 22:34:38 +00:00
3a2cab95b1
gnu: r-gage: Update to 2.44.0.
...
* gnu/packages/bioconductor.scm (r-gage): Update to 2.44.0.
2021-11-07 22:34:38 +00:00
309e04ba18
gnu: r-fastseg: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-fastseg): Update to 1.40.0.
2021-11-07 22:34:38 +00:00
7973617595
gnu: r-ensembldb: Update to 2.18.0.
...
* gnu/packages/bioconductor.scm (r-ensembldb): Update to 2.18.0.
2021-11-07 22:34:38 +00:00
46663d5769
gnu: r-edger: Update to 3.36.0.
...
* gnu/packages/bioconductor.scm (r-edger): Update to 3.36.0.
2021-11-07 22:34:38 +00:00
933366ffe7
gnu: r-edaseq: Update to 2.28.0.
...
* gnu/packages/bioconductor.scm (r-edaseq): Update to 2.28.0.
2021-11-07 22:34:38 +00:00
de8089a767
gnu: r-dirichletmultinomial: Update to 1.36.0.
...
* gnu/packages/bioconductor.scm (r-dirichletmultinomial): Update to 1.36.0.
2021-11-07 22:34:38 +00:00
cb87707987
gnu: r-dexseq: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-dexseq): Update to 1.40.0.
2021-11-07 22:34:38 +00:00
87db919dbb
gnu: r-deseq2: Update to 1.34.0.
...
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.34.0.
2021-11-07 22:34:38 +00:00
f34bcc5c6b
gnu: r-copywriter: Update to 2.26.0.
...
* gnu/packages/bioconductor.scm (r-copywriter): Update to 2.26.0.
2021-11-07 22:34:37 +00:00
e5d90645ea
gnu: r-complexheatmap: Update to 2.10.0.
...
* gnu/packages/bioconductor.scm (r-complexheatmap): Update to 2.10.0.
[propagated-inputs]: Remove r-cairo.
2021-11-07 22:34:37 +00:00
126a4b6c9d
gnu: r-chipseq: Update to 1.44.0.
...
* gnu/packages/bioconductor.scm (r-chipseq): Update to 1.44.0.
2021-11-07 22:34:37 +00:00
cd7c1e2c3e
gnu: r-chipseeker: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-chipseeker): Update to 1.30.0.
2021-11-07 22:34:37 +00:00
395e9ab420
gnu: r-category: Update to 2.60.0.
...
* gnu/packages/bioconductor.scm (r-category): Update to 2.60.0.
2021-11-07 22:34:37 +00:00
a6b83bd30d
gnu: r-bsgenome: Update to 1.62.0.
...
* gnu/packages/bioconductor.scm (r-bsgenome): Update to 1.62.0.
2021-11-07 22:34:37 +00:00
eea602cdbb
gnu: r-biovizbase: Update to 1.42.0.
...
* gnu/packages/bioconductor.scm (r-biovizbase): Update to 1.42.0.
2021-11-07 22:34:37 +00:00
7851f7f2c6
gnu: r-biostrings: Update to 2.62.0.
...
* gnu/packages/bioconductor.scm (r-biostrings): Update to 2.62.0.
2021-11-07 22:34:37 +00:00
d0ceaf62fc
gnu: r-biomart: Update to 2.50.0.
...
* gnu/packages/bioconductor.scm (r-biomart): Update to 2.50.0.
2021-11-07 22:34:37 +00:00
918c08e20d
gnu: r-biobase: Update to 2.54.0.
...
* gnu/packages/bioconductor.scm (r-biobase): Update to 2.54.0.
2021-11-07 22:34:37 +00:00
e606add2e4
gnu: r-bamsignals: Update to 1.26.0.
...
* gnu/packages/bioconductor.scm (r-bamsignals): Update to 1.26.0.
2021-11-07 22:34:37 +00:00
9efb70c077
gnu: r-aroma-light: Update to 3.24.0.
...
* gnu/packages/bioconductor.scm (r-aroma-light): Update to 3.24.0.
2021-11-07 22:34:37 +00:00
7f291d0965
gnu: r-annotationhub: Update to 3.2.0.
...
* gnu/packages/bioconductor.scm (r-annotationhub): Update to 3.2.0.
2021-11-07 22:34:37 +00:00
c46f294350
gnu: r-annotationforge: Update to 1.36.0.
...
* gnu/packages/bioconductor.scm (r-annotationforge): Update to 1.36.0.
2021-11-07 22:34:37 +00:00
0e31c0034a
gnu: r-annotationfilter: Update to 1.18.0.
...
* gnu/packages/bioconductor.scm (r-annotationfilter): Update to 1.18.0.
2021-11-07 22:34:36 +00:00
eccd328684
gnu: r-annotationdbi: Update to 1.56.1.
...
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.56.1.
2021-11-07 22:34:36 +00:00
eee1bc786a
gnu: r-annotate: Update to 1.72.0.
...
* gnu/packages/bioconductor.scm (r-annotate): Update to 1.72.0.
2021-11-07 22:34:36 +00:00
5b63db8f83
gnu: r-affxparser: Update to 1.66.0.
...
* gnu/packages/bioconductor.scm (r-affxparser): Update to 1.66.0.
2021-11-07 22:34:36 +00:00
5de927226c
gnu: r-affyio: Update to 1.64.0.
...
* gnu/packages/bioconductor.scm (r-affyio): Update to 1.64.0.
2021-11-07 22:34:36 +00:00
5ab6e9e100
gnu: r-affycoretools: Update to 1.66.0.
...
* gnu/packages/bioconductor.scm (r-affycoretools): Update to 1.66.0.
2021-11-07 22:34:36 +00:00
21b5db3f1e
gnu: r-affycontam: Update to 1.52.0.
...
* gnu/packages/bioconductor.scm (r-affycontam): Update to 1.52.0.
2021-11-07 22:34:36 +00:00
71f58a16ae
gnu: r-affycompatible: Update to 1.54.0.
...
* gnu/packages/bioconductor.scm (r-affycompatible): Update to 1.54.0.
2021-11-07 22:34:36 +00:00
a610856e88
gnu: r-affycomp: Update to 1.70.0.
...
* gnu/packages/bioconductor.scm (r-affycomp): Update to 1.70.0.
2021-11-07 22:34:36 +00:00
1a4e10d555
gnu: r-affy: Update to 1.72.0.
...
* gnu/packages/bioconductor.scm (r-affy): Update to 1.72.0.
2021-11-07 22:34:36 +00:00
a85e744c3d
gnu: r-iranges: Update to 2.28.0.
...
* gnu/packages/bioconductor.scm (r-iranges): Update to 2.28.0.
2021-11-07 22:34:36 +00:00
1acf3f1821
gnu: r-ideoviz: Update to 1.30.0.
...
* gnu/packages/bioconductor.scm (r-ideoviz): Update to 1.30.0.
2021-11-07 22:34:36 +00:00
b0a2fc9253
gnu: r-bluster: Update to 1.4.0.
...
* gnu/packages/bioconductor.scm (r-bluster): Update to 1.4.0.
2021-11-07 22:34:36 +00:00
35ccf99fff
gnu: r-delayedarray: Update to 0.20.0.
...
* gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.20.0.
2021-11-07 22:34:35 +00:00
7cc053eaca
gnu: r-deepsnv: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-deepsnv): Update to 1.40.0.
2021-11-07 22:34:35 +00:00
628a8f8c78
gnu: r-decipher: Update to 2.22.0.
...
* gnu/packages/bioconductor.scm (r-decipher): Update to 2.22.0.
2021-11-07 22:34:35 +00:00
07b14e81f9
gnu: r-cummerbund: Update to 2.36.0.
...
* gnu/packages/bioconductor.scm (r-cummerbund): Update to 2.36.0.
2021-11-07 22:34:35 +00:00
9d51c1f423
gnu: r-coverageview: Update to 1.32.0.
...
* gnu/packages/bioconductor.scm (r-coverageview): Update to 1.32.0.
2021-11-07 22:34:35 +00:00
3622390699
gnu: r-biocgenerics: Update to 0.40.0.
...
* gnu/packages/bioconductor.scm (r-biocgenerics): Update to 0.40.0.
2021-11-07 22:34:35 +00:00
6ed26516bf
gnu: r-biocversion: Update to 3.14.0.
...
* gnu/packages/bioconductor.scm (r-biocversion): Update to 3.14.0.
2021-11-07 22:34:35 +00:00
fc0fa7a431
gnu: r-aneufinder: Update to 1.22.0.
...
* gnu/packages/bioconductor.scm (r-aneufinder): Update to 1.22.0.
2021-11-07 22:34:35 +00:00
d1c79f5a2c
gnu: r-biocparallel: Update to 1.28.0.
...
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.28.0.
[arguments]: Adjust build phase to patch renamed file.
2021-11-07 22:34:35 +00:00
4a92ab58f6
gnu: Add r-msfeatures.
...
* gnu/packages/bioconductor.scm (r-msfeatures): New variable.
2021-11-07 22:34:34 +00:00
92b85194cd
gnu: r-with-tests: Update patch to DESCRIPTION file.
...
* gnu/packages/statistics.scm (r-with-tests)[arguments]: Patch line breaks and
spaces in DESCRIPTION file to ensure reproducible build.
2021-11-07 22:34:34 +00:00
108111114d
gnu: r-with-tests: Remove trailing #T.
...
* gnu/packages/statistics.scm (r-with-tests)[arguments]: Remove trailing #T
from build phases.
2021-11-07 22:34:34 +00:00
17d0bbef88
gnu: r-with-tests: Update to 4.1.2.
...
* gnu/packages/statistics.scm (r-with-tests): Update to 4.1.2.
2021-11-07 22:34:29 +00:00
bd41e590dd
gnu: ardour: Update to 6.9.
...
* gnu/packages/audio.scm (ardour): Update to 6.9.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-11-07 23:10:41 +01:00
2f665d4309
doc: Improve documentation of the Bash home service
...
* doc/guix.texi (Shells Home Services): Document ‘home-bash-extension’
configuration record.
* gnu/home/services/shells.scm (generate-home-bash-documentation): Extract
docstrings from ‘home-bash-extension’.
(home-bash-configuration): Expound on docstrings.
(home-bash-extension): Likewise.
Fixes: <https://issues.guix.gnu.org/50991 >
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-11-07 23:10:41 +01:00
4b96998292
home: services: bash: Add ‘aliases’ field.
...
* doc/guix.texi (Shells Home Services): Document it.
* gnu/home/services/shells.scm (bash-serialize-aliases): New procedure.
(home-bash-configuration, home-bash-extension): Add ‘aliases’ field.
(home-bash-extensions): Adjust accordingly.
* guix/scripts/home/import.scm (generate-bash-configuration+modules): Populate
the ‘alias’ field.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-11-07 23:10:41 +01:00
5eb5c0789f
file-systems: Validate the 'flags' field.
...
Fixes <https://issues.guix.gnu.org/51425 >.
Reported by Jonathan Brielmaier <jonathan.brielmaier@web.de>.
* gnu/system/file-systems.scm (invalid-file-system-flags)
(%validate-file-system-flags): New procedures.
(validate-file-system-flags): New macro.
(<file-system>)[flags]: Add 'sanitize' property.
2021-11-07 23:10:41 +01:00
dab2ac2ed5
gnu: 0ad: Update to 0.0.25b-alpha.
...
* gnu/packages/games.scm (0ad-data): Update to 0.0.25b-alpha.
Unpack .zip files without need for a snippet.
(0ad): Update to 0.0.25b-alpha.
[arguments]<#:phases>: Properly unbundle cxxtest. Respect #:tests?.
Install Freedesktop mimeinfo.
Install icon to hicolor theme instead of share/pixmaps, which I don't
think is used.
<#:tests> Disable tests for now since they don't run.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2021-11-07 22:57:05 +01:00
90cd653abe
gnu: ansible-core: Update to 2.11.6.
...
* gnu/packages/admin.scm (ansible-core): Update to 2.11.6.
2021-11-07 22:52:43 +01:00
031906be76
gnu: xfstests: Update to 1.1.0-1.bae1d15.
...
* gnu/packages/file-systems.scm (xfstests): Update to 1.1.0-1.bae1d15.
2021-11-07 22:52:43 +01:00
6a36f4e4fc
gnu: lv2: Update to 1.18.2.
...
* gnu/packages/audio.scm (lv2): Update to 1.18.2.
2021-11-07 22:52:43 +01:00
c569c735c2
gnu: jalv: Update to 1.6.6.
...
* gnu/packages/audio.scm (jalv): Update to 1.6.6.
2021-11-07 22:52:43 +01:00
b331ee62f5
gnu: lilv: Update to 0.24.12.
...
* gnu/packages/audio.scm (lilv): Update to 0.24.12.
[arguments]: Don't explicitly return #t from phases.
2021-11-07 22:52:42 +01:00
55bef80580
gnu: dvdisaster: Remove uninstallation script.
...
* gnu/packages/cdrom.scm (dvdisaster)[arguments]: Add a new
'remove-uninstall-script phase.
2021-11-07 22:52:42 +01:00
153d9bca72
gnu: dvdisaster: Update to 0.79.9.
...
* gnu/packages/cdrom.scm (dvdisaster): Update to 0.79.9.
[source, home-page]: Update home page.
[arguments]: Don't explicitly return #t from phases.
2021-11-07 22:52:42 +01:00
92af2ec5d0
gnu: openttd: Fix build failure.
...
* packages/games.scm (openttd)[native-inputs]: Use gcc-9 to fix build
failure.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2021-11-07 22:13:37 +01:00
c9b9919858
gnu: openttd-openmsx: Update to 0.4.2.
...
* packages/games.scm (openttd-openmsx): Update to 0.4.2.
[native-inputs]: Replace python-2 with python-wrapper.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2021-11-07 22:13:37 +01:00
574f4b7d3f
gnu: openttd-opensfx: Update to 1.0.2.
...
* packages/games.scm (openttd-opensfx): Update to 1.0.2.
[native-inputs]: Replace python-2 with python.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2021-11-07 22:13:37 +01:00
c2759211fc
gnu: openttd-opengfx: Update to 7.1.
...
* packages/games.scm (openttd-opengfx): Update to 7.1.
[native-inputs]: Replace python-2 with python.
[arguments]: Use cc-for-target.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2021-11-07 22:13:36 +01:00
b6bb7720eb
gnu: openttd-engine: Update to 12.0.
...
* gnu/packages/games.scm (openttd-engine): Update engine to 12.0.
Signed-off-by: Liliana Marie Prikler <liliana.prikler@gmail.com>
2021-11-07 22:13:36 +01:00
2ebadb390e
gnu: Add weechat-wee-slack.
...
* gnu/packages/messaging.scm (weechat-wee-slack): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:58:03 +02:00
7ebed0cdc8
gnu: Add weechat-matrix.
...
* gnu/packages/messaging.scm (weechat-matrix): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:50:32 +02:00
73679a6837
gnu: Add python-webcolors.
...
* gnu/packages/python-web.scm (python-webcolors): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:50:27 +02:00
6e3eba9d1f
gnu: Add rust-log4rs-1.
...
* gnu/packages/crates-io.scm (rust-log4rs-1): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:48 +02:00
b76b29957e
gnu: Add rust-log-mdc-0.1.
...
* gnu/packages/crates-io.scm (rust-log-mdc-0.1): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:46 +02:00
e9eb6b1102
gnu: Add rust-diffus-0.10.
...
* gnu/packages/crates-io.scm (rust-diffus-0.10): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:44 +02:00
38912f139f
gnu: Add rust-diffus-derive-0.10.
...
* gnu/packages/crates-io.scm (rust-diffus-derive-0.10): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:43 +02:00
551e39ccb1
gnu: Add rust-snake-case-0.3.
...
* gnu/packages/crates-io.scm (rust-snake-case-0.3): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:41 +02:00
cd968c83aa
gnu: Add rust-xmltree-0.10.
...
* gnu/packages/crates-io.scm (rust-xmltree-0.10): New variable.
(rust-xmltree-0.8): Inherit from above.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:39 +02:00
9bf3bc8418
gnu: Add rust-color-backtrace-0.5.
...
* gnu/packages/crates-io.scm (rust-color-backtrace-0.5): New variable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:28:37 +02:00
3e6f857354
gnu: x42-plugins: Prepare for cross-compiling.
...
* gnu/packages/music.scm (x42-plugins)[arguments]: Remove
'set-CC-variable phase. Use cc-for-target in make-flags.
2021-11-07 22:25:23 +02:00
6f45418416
gnu: x42-plugins: Update to 20211016.
...
* gnu/packages/music.scm (x42-plugins): Update to 20211016.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-11-07 22:21:20 +02:00
a0f1476e8f
gnu: emacs-stream: Don't set a source file name.
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This is a follow-up to 678248f5ea
2021-11-07 14:20:41 +01:00
dc8e9d6f88
gnu: osm2pgsql: Update to 1.5.1.
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* gnu/packages/geo.scm (osm2pgsql): Update to 1.5.1.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2021-11-07 10:01:31 +01:00
53bbbfb77c
gnu: protozero: Update to 1.7.0.
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* gnu/packages/protobuf.scm (protozero): Update to 1.7.0.
Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
2021-11-07 09:59:59 +01:00
Ricardo Wurmus
Thorsten Wilms
Xinglu Chen
Ludovic Courtès
Brendan Tildesley
Tobias Geerinckx-Rice
Felix Gruber
Arun Isaac
Vinicius Monego
Efraim Flashner
Marius Bakke