102cf9a1ca
gnu: r-sva: Update to 3.32.1.
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* gnu/packages/bioinformatics.scm (r-sva): Update to 3.32.1.
2019-05-29 00:02:31 +02:00
24f46e6e9e
gnu: r-genomicfeatures: Update to 1.36.1.
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* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.1.
2019-05-29 00:02:25 +02:00
4eea449aaa
gnu: r-edger: Update to 3.26.4.
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* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.4.
2019-05-29 00:02:17 +02:00
4929a30f69
gnu: r-variantannotation: Update to 1.30.1.
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* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.1.
2019-05-29 00:02:10 +02:00
531940d388
import: cran: Ignore invalid packages from the system requirements.
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* guix/import/cran.scm (description->package): Filter invalid packages from
the list of system requirements.
2019-05-28 23:56:59 +02:00
e4519ee73d
gnu: r-atacseqqc: Update to 1.8.1.
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* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.1.
2019-05-28 23:56:36 +02:00
13b49976b7
gnu: r-icobra: Update to 1.12.1.
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* gnu/packages/bioconductor.scm (r-icobra): Update to 1.12.1.
2019-05-28 23:56:31 +02:00
85d0bd5340
gnu: r-chippeakanno: Update to 3.18.1.
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* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.1.
2019-05-28 23:56:27 +02:00
f43ec9e96a
gnu: r-geosphere: Update to 1.5-10.
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* gnu/packages/cran.scm (r-geosphere): Update to 1.5-10.
2019-05-28 23:56:15 +02:00
0fe52daa59
gnu: r-ggfortify: Update to 0.4.7.
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* gnu/packages/cran.scm (r-ggfortify): Update to 0.4.7.
2019-05-28 23:56:08 +02:00
7a8577717f
gnu: r-wgcna: Update to 1.68.
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* gnu/packages/cran.scm (r-wgcna): Update to 1.68.
2019-05-28 23:56:04 +02:00
650e8defa0
gnu: r-bookdown: Update to 0.11.
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* gnu/packages/cran.scm (r-bookdown): Update to 0.11.
[propagated-inputs]: Add ghc-pandoc; remove r-yaml.
2019-05-28 23:55:44 +02:00
20656a0202
gnu: r-upsetr: Update to 1.4.0.
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* gnu/packages/cran.scm (r-upsetr): Update to 1.4.0.
2019-05-28 23:55:38 +02:00
41059f63df
gnu: r-epi: Update to 2.37.
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* gnu/packages/cran.scm (r-epi): Update to 2.37.
2019-05-28 23:55:33 +02:00
9a749cad19
gnu: r-etm: Update to 1.0.5.
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* gnu/packages/cran.scm (r-etm): Update to 1.0.5.
2019-05-28 23:55:27 +02:00
10dbc3fc54
gnu: r-cmprsk: Update to 2.2-8.
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* gnu/packages/cran.scm (r-cmprsk): Update to 2.2-8.
2019-05-28 23:55:21 +02:00
fa10f0d330
gnu: r-ks: Update to 1.11.5.
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* gnu/packages/cran.scm (r-ks): Update to 1.11.5.
2019-05-28 23:55:14 +02:00
1d7bde781f
gnu: r-bayesplot: Update to 1.7.0.
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* gnu/packages/cran.scm (r-bayesplot): Update to 1.7.0.
[propagated-inputs]: Add r-glue, r-tibble, and r-tidyselect.
2019-05-28 23:54:53 +02:00
27abdb11ae
gnu: r-refgenome: Update to 1.7.7.
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* gnu/packages/cran.scm (r-refgenome): Update to 1.7.7.
2019-05-28 23:54:46 +02:00
794c9e7d96
gnu: r-snakecase: Update to 0.11.0.
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* gnu/packages/cran.scm (r-snakecase): Update to 0.11.0.
2019-05-28 23:54:40 +02:00
9dd351233b
gnu: r-openxlsx: Update to 4.1.0.1.
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* gnu/packages/cran.scm (r-openxlsx): Update to 4.1.0.1.
2019-05-28 23:54:36 +02:00
d328379d62
gnu: r-pillar: Update to 1.4.1.
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* gnu/packages/cran.scm (r-pillar): Update to 1.4.1.
2019-05-28 23:54:32 +02:00
130314d8fa
gnu: r-tsp: Update to 1.1-7.
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* gnu/packages/cran.scm (r-tsp): Update to 1.1-7.
2019-05-28 23:54:26 +02:00
6d3cfb88ea
gnu: r-jomo: Update to 2.6-8.
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* gnu/packages/cran.scm (r-jomo): Update to 2.6-8.
2019-05-28 23:54:18 +02:00
beb82eb9d0
gnu: r-ksamples: Update to 1.2-9.
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* gnu/packages/cran.scm (r-ksamples): Update to 1.2-9.
2019-05-28 23:54:12 +02:00
6edf0fb3db
gnu: r-lpsolve: Update to 5.6.13.1.
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* gnu/packages/cran.scm (r-lpsolve): Update to 5.6.13.1.
2019-05-28 23:54:07 +02:00
14532452b8
gnu: r-car: Update to 3.0-3.
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* gnu/packages/statistics.scm (r-car): Update to 3.0-3.
2019-05-28 23:54:00 +02:00
341643c6e1
gnu: r-fpc: Update to 2.2-1.
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* gnu/packages/statistics.scm (r-fpc): Update to 2.2-1.
[propagated-inputs]: Remove r-trimcluster.
2019-05-28 23:53:43 +02:00
f95690ceae
gnu: r-prabclus: Update to 2.2-7.1.
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* gnu/packages/statistics.scm (r-prabclus): Update to 2.2-7.1.
2019-05-28 23:53:33 +02:00
1498b5a2a4
gnu: r-zoo: Update to 1.8-6.
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* gnu/packages/statistics.scm (r-zoo): Update to 1.8-6.
2019-05-28 23:53:28 +02:00
3fca3fa1bc
gnu: r-rmarkdown: Update to 1.13.
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* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.13.
[propagated-inputs]: Add r-xfun.
2019-05-28 23:53:15 +02:00
923c6ac139
gnu: r-evaluate: Update to 0.14.
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* gnu/packages/statistics.scm (r-evaluate): Update to 0.14.
2019-05-28 23:53:02 +02:00
fa86654824
self: Fix unquoting.
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This is a follow-up to commit dfc69e4b6d
2019-05-28 23:21:27 +02:00
67458e209d
gnu: python-attrs: Update to 19.1.0.
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* gnu/packages/python-xyz.scm (python-attrs): Update to 19.1.0.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-28 21:48:10 +02:00
205eb40e5b
gnu: python-flask: Update to 1.0.3.
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* gnu/packages/python-web.scm (python-flask): Update to 1.0.3.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-28 21:18:24 +02:00
458e92215f
gnu: d-feet: Fix missing input and update to 0.3.14.
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* gnu/packages/gnome.scm (d-feet): Update to 0.3.14.
[inputs]: Add hicolor-icon-theme since d-feet won't list anything without it.
2019-05-28 14:53:02 +02:00
e7f078c337
gnu: guix: Update to 35d1354.
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* gnu/packages/package-management.scm (guix): Update to 35d1354
2019-05-28 09:51:12 +02:00
70fa77d881
gnu: emacs-relint: Update to 1.8.
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* gnu/packages/emacs-xyz.scm (emacs-relint): Update to 1.8.
2019-05-27 23:22:34 +02:00
d8d896c5b5
gnu: emacs-xr: Update to 1.12.
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* gnu/packages/emacs-xyz.scm (emacs-xr): Update to 1.12.
2019-05-27 23:22:19 +02:00
35d1354fe8
publish: Display the compression method and level in use.
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* guix/scripts/publish.scm (guix-publish): Use 'info' instead of
'format' for the initial message. When COMPRESSION is true, display the
method and level in use.
2019-05-27 22:47:24 +02:00
c131bea276
lzlib: 'lzread!' never returns more than it was asked for.
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Fixes a bug whereby 'lzread!' could return more than COUNT.
* guix/lzlib.scm (lzread!): Rewrite in a semi-functional style.
2019-05-27 22:47:24 +02:00
2e5c71b2a2
gnu: guix: Add dependency on lzlib.
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* gnu/packages/package-management.scm (guix)[inputs]: Add LZLIB.
2019-05-27 22:47:24 +02:00
73ac9098b1
self: Add dependency on lzlib.
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* guix/self.scm (compiled-guix): Pass #:lzlib to 'make-config.scm'.
(make-config.scm): Add #:lzlib and honor it.
(specification->package): Add "lzlib".
2019-05-27 22:47:24 +02:00
66229b04ae
publish: Add support for lzip.
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* guix/scripts/publish.scm (show-help, %options): Support '-C METHOD'
and '-C METHOD:LEVEL'.
(default-compression): New procedure.
(bake-narinfo+nar): Add lzip.
(nar-response-port): Likewise.
(string->compression-type): New procedure.
(make-request-handler): Generalize /nar/gzip handler to handle /nar/lzip
as well.
* tests/publish.scm ("/nar/lzip/*"): New test.
("/*.narinfo with lzip compression"): New test.
* doc/guix.texi (Invoking guix publish): Document it.
(Requirements): Mention lzlib.
2019-05-27 22:47:24 +02:00
4e48923e75
utils: Support compression and decompression with lzip.
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* guix/utils.scm (lzip-port): New procedure.
(decompressed-port, compressed-port, compressed-output-port): Add 'lzip
case.
* tests/utils.scm <top level>: Call 'test-compression/decompression' for
'lzip as well.
2019-05-27 22:47:24 +02:00
4c7ebe318f
utils: Test 'compressed-port' and 'decompressed-port' for both gzip and xz.
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* tests/utils.scm (test-compression/decompression): New procedure.
<top level>: Call it for both 'xz and 'gzip.
2019-05-27 22:47:24 +02:00
2a991f3ae4
lzlib: Add 'make-lzip-input-port/compressed'.
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* guix/lzlib.scm (lzwrite!, make-lzip-input-port/compressed): New
procedures.
* tests/lzlib.scm ("make-lzip-input-port/compressed"): New test.
* guix/tests.scm (%seed): Export.
2019-05-27 22:47:24 +02:00
e13354a7ca
lzlib: Adjust 'lz-compress-read' docstring.
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* guix/lzlib.scm (lz-compress-read): The integer return can be zero;
adjust docstring accordingly.
2019-05-27 22:47:23 +02:00
8916034a34
gnu: r-shiny: Fix JavaScript minification.
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Fixes <https://bugs.gnu.org/35923 >.
* gnu/packages/cran.scm (r-shiny)[native-inputs]: Add uglify-js.
2019-05-27 22:09:22 +02:00
ed72a133db
gnu: Add osmctools
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* gnu/packages/geo.scm (osmctools): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2019-05-27 14:32:13 -04:00
Ricardo Wurmus