Ricardo Wurmus
40ba4e8466
gnu: r-seqlogo: Update to 1.54.3.
...
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.54.3.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
837e7634d9
gnu: r-genomation: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.20.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
2d537b5afc
gnu: r-seqpattern: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.20.0.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
e6df69a84d
gnu: r-impute: Update to 1.62.0.
...
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.62.0.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
d9b23ec47c
gnu: r-bsgenome: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.56.0.
[propagated-inputs]: Add r-matrixstats.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
543fd63c2e
gnu: r-topgo: Update to 2.40.0.
...
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.40.0.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
a285314e29
gnu: r-genomicfeatures: Update to 1.40.0.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.40.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
f85794edb8
gnu: r-rtracklayer: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.48.0.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
58613ca1e5
gnu: r-genomicalignments: Update to 1.24.0.
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* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.24.0.
2020-06-13 01:19:42 +02:00
Ricardo Wurmus
87c98cf701
gnu: r-summarizedexperiment: Update to 1.18.1.
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* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.18.1.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
46e103a1b5
gnu: r-delayedarray: Update to 0.14.0.
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* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.14.0.
[propagated-inputs]: Remove r-biocparallel.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
1f9c87a442
gnu: r-rsamtools: Update to 2.4.0.
...
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.4.0.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
d3491d4dad
gnu: r-biostrings: Update to 2.56.0.
...
* gnu/packages/bioinformatics.scm ( r-biostrings): Update to 2.56.0.
[propagated-inputs]: Add r-crayon.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
cb486f16da
gnu: r-biocparallel: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.22.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
e87e6cc89d
gnu: r-biomart: Update to 2.44.0.
...
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.44.0.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
920224771f
gnu: r-annotationdbi: Update to 1.50.0.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.50.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
7d91e3bed4
gnu: r-biobase: Update to 2.48.0.
...
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.48.0.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
087a97f8df
gnu: r-genomicranges: Update to 1.40.0.
...
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.40.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
e0d40fa275
gnu: r-xvector: Update to 0.28.0.
...
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.28.0.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
49c766d0bb
gnu: r-limma: Update to 3.44.1.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.44.1.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
cdd83b2e22
gnu: r-variantannotation: Update to 1.34.0.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.34.0.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
c14d59d9ad
gnu: r-edger: Update to 3.30.3.
...
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.30.3.
2020-06-13 01:19:41 +02:00
Ricardo Wurmus
506735eea6
gnu: r-genomeinfodb: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.24.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
8a38b676da
gnu: r-iranges: Update to 2.22.2.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.22.2.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
f189f536be
gnu: r-s4vectors: Update to 0.26.1.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.26.1.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
1a9de6cfe8
gnu: r-bioccheck: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.24.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
9f416be83d
gnu: r-biocstyle: Update to 2.16.0.
...
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.16.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
1ca88fb8e9
gnu: r-biocviews: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.56.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
5de96ae98b
gnu: r-grohmm: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.22.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
bb18d11d85
gnu: r-systempiper: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.22.0.
[propagated-inputs]: Add r-assertthat, r-magrittr, r-rsvg, r-dot, and
r-stringr; remove r-biocgenerics.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
681cca95b3
gnu: r-shortread: Update to 1.46.0.
...
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.46.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
3d2899dab5
gnu: r-gostats: Update to 2.54.0.
...
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.54.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
be414286bc
gnu: r-category: Update to 2.54.0.
...
* gnu/packages/bioinformatics.scm (r-category): Update to 2.54.0.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
a8613ff861
gnu: r-gseabase: Update to 1.50.1.
...
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.50.1.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:40 +02:00
Ricardo Wurmus
7d8b96e24b
gnu: r-rbgl: Update to 1.64.0.
...
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.64.0.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
397568dbca
gnu: r-annotationforge: Update to 1.30.1.
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.30.1.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
db5addba2c
gnu: r-dexseq: Update to 1.34.0.
...
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.34.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
3d7de4ed82
gnu: r-deseq2: Update to 1.28.1.
...
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.28.1.
[propagated-inputs]: Remove r-hmisc.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
5fdea056c9
gnu: r-genefilter: Update to 1.70.0.
...
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.70.0.
[native-inputs]: Add r-knitr.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
c85e5ac0df
gnu: r-rgraphviz: Update to 2.32.0.
...
* gnu/packages/graph.scm (r-rgraphviz): Update to 2.32.0.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
2226a2a8de
gnu: r-preprocesscore: Update to 1.50.0.
...
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.50.0.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
67a289e5bd
gnu: Add r-dot.
...
* gnu/packages/cran.scm (r-dot): New variable.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
06ceac32e6
gnu: Add r-v8.
...
* gnu/packages/cran.scm (r-v8): New variable.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
e6aacef67e
gnu: Add r-scatterpie.
...
* gnu/packages/cran.scm (r-scatterpie): New variable.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
45f54b418b
gnu: Add r-gprofiler2.
...
* gnu/packages/cran.scm (r-gprofiler2): New variable.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
f9311eaa7c
gnu: node: Build shared library.
...
* gnu/packages/node.scm (node)[arguments]: Build shared library.
2020-06-13 01:19:39 +02:00
Ricardo Wurmus
8e518d4802
guix: Update to Bioconductor 3.11.
...
* guix/build-system/r.scm (bioconductor-uri): Use new URL.
* guix/import/cran.scm (%bioconductor-version): Update to 3.11.
2020-06-13 01:19:38 +02:00
Ricardo Wurmus
a620d22ea8
gnu: r-gprofiler: Move to (gnu packages cran).
...
* gnu/packages/bioinformatics.scm (r-gprofiler): Move this variable from here...
* gnu/packages/cran.scm (r-gprofiler): ...to here.
2020-06-13 01:19:38 +02:00
Christopher Baines
db6290af7c
lint: check-patch-file-names: Use origin-actual-file-name.
...
This avoids crashes for the patch-file-names checker where a <origin> is used
for a patch, but without a value for the file-name field. This is currently
the case with the bash package.
* guix/lint.scm (check-patch-file-names): Change origin-file-name to
origin-actual-file-name.
2020-06-12 22:26:47 +01:00
Ludovic Courtès
29e4d3ea06
gnu: guile-sqlite3: Update to 0.1.1.
...
* gnu/packages/guile.scm (guile-sqlite3): Update to 0.1.1.
[source]: Remove 'patches', 'modules', and 'snippet'.
* gnu/packages/patches/guile-sqlite3-fix-cross-compilation.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2020-06-12 18:56:11 +02:00
