b290a631a0
gnu: guile-present: Install .go files to libdir.
...
* gnu/packages/plotutils.scm (guile-present)[source](modules, snippet):
Remove.
2018-09-06 10:49:42 +02:00
89874fd156
gnu: guile-charting: Install .go files to libdir.
...
* gnu/packages/plotutils.scm (guile-charting)[source](modules, snippet):
Remove.
2018-09-06 10:48:44 +02:00
b3ca2d8883
gnu: hpcguix-web: Update to 9ff40fc.
...
* gnu/packages/web.scm (hpcguix-web): Update to 9ff40fc.
[arguments]: In 'wrap-program' phase, add guile-gcrypt, guile-git, and
guile-bytestructures to DEPS.
2018-09-06 10:46:07 +02:00
96d6c41dfa
gnu: guile-commonmark: Install .go files to libdir.
...
* gnu/packages/guile.scm (guile-commonmark)[source](snippet): Change the
"modir = " and "godir = " line separately, allowing .go files to be
installed to $(libdir).
2018-09-06 10:43:01 +02:00
d53aeeafcc
Add missing use-modules clause.
...
This is a follow-up to commit 5dfe491290
2018-09-06 04:53:32 +02:00
79b283e433
gnu: ccache: Update to 3.4.3.
...
* gnu/packages/ccache.scm (ccache): Update to 3.4.3.
[arguments]: Remove obsolete 'munge-failing-test' phase.
2018-09-06 02:33:47 +02:00
d83477adf9
gnu: font-fira-code: Update to 1.205.
...
* gnu/packages/fonts.scm (font-fira-code): Update to 1.205.
2018-09-06 02:33:47 +02:00
a5c70c2e0e
gnu: libmpdclient: Update to 2.15.
...
* gnu/packages/mpd.scm (libmpdclient): Update to 2.15.
2018-09-06 02:33:47 +02:00
00a43cb81c
gnu: pigx-scrnaseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
c2b4f81e51
gnu: pigx-bsseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
7cd40c8c5d
gnu: pigx-chipseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
ca248f1db9
gnu: pigx-rnaseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
dff5640a59
gnu: r-rcas: Use standard version of ghc-pandoc-citeproc.
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* gnu/packages/bioinformatics.scm (r-rcas)[native-inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc".
2018-09-05 20:03:09 +02:00
f33a4748b7
gnu: r-modelmetrics: Update to 1.2.0.
...
* gnu/packages/statistics.scm (r-modelmetrics): Update to 1.2.0.
[propagated-inputs]: Add r-data-table.
2018-09-05 20:03:09 +02:00
0d279d607a
gnu: r-robustbase: Update to 0.93-2.
...
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2.
2018-09-05 20:03:09 +02:00
8e499d756a
gnu: r-rann: Update to 2.6.
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* gnu/packages/statistics.scm (r-rann): Update to 2.6.
2018-09-05 20:03:09 +02:00
314e8e763f
gnu: r-ggthemes: Update to 4.0.1.
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* gnu/packages/statistics.scm (r-ggthemes): Update to 4.0.1.
[propagated-inputs]: Remove r-assertthat and r-colorspace; add r-purrr,
r-stringr, and r-tibble.
2018-09-05 20:03:09 +02:00
e5db6890ad
gnu: r-ztable: Update to 0.2.0.
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* gnu/packages/statistics.scm (r-ztable): Update to 0.2.0.
[propagated-inputs]: Add r-flextable, r-magrittr, r-moonbook, r-officer,
r-rcolorbrewer, r-scales, and r-stringr.
2018-09-05 20:03:08 +02:00
f0519c8fae
gnu: r-zoo: Update to 1.8-3.
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* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3.
2018-09-05 20:03:08 +02:00
8da236a377
gnu: r-gtools: Update to 3.8.1.
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* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1.
2018-09-05 20:03:08 +02:00
c28d8d8db0
gnu: r-kernlab: Update to 0.9-27.
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* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27.
2018-09-05 20:03:08 +02:00
c0608f815c
gnu: r-adaptivesparsity: Update to 1.6.
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* gnu/packages/machine-learning.scm (r-adaptivesparsity): Update to 1.6.
[propagated-inputs]: Add r-mass and r-matrix.
2018-09-05 20:03:08 +02:00
a207bca2ad
gnu: r-codedepends: Move from cran to bioconductor.
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* gnu/packages/cran.scm (r-codedepends): Move from here...
* gnu/packages/bioconductor.scm (r-codedepends): ...to here.
2018-09-05 20:03:08 +02:00
5dfe491290
gnu: r-graph: Move from bioinformatics to bioconductor.
...
* gnu/packages/bioinformatics.scm (r-graph): Move from here...
* gnu/packages/bioconductor.scm (r-graph): ...to here.
2018-09-05 20:03:08 +02:00
caaec88651
gnu: r-ggpubr: Update to 0.1.8.
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* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.8.
[propagated-inputs]: Add r-glue and r-polynom.
2018-09-05 20:03:08 +02:00
a9b02ddd73
gnu: r-codedepends: Update to 0.6.5.
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* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5.
[propagated-inputs]: Add r-graph.
2018-09-05 20:03:08 +02:00
2e6909baf0
gnu: r-later: Update to 0.7.4.
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* gnu/packages/cran.scm (r-later): Update to 0.7.4.
2018-09-05 20:03:08 +02:00
12132229b0
gnu: r-maptools: Update to 0.9-3.
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* gnu/packages/cran.scm (r-maptools): Update to 0.9-3.
2018-09-05 20:03:08 +02:00
7a96c4e0a0
gnu: r-fnn: Update to 1.1.2.1.
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* gnu/packages/cran.scm (r-fnn): Update to 1.1.2.1.
2018-09-05 20:03:08 +02:00
19950821d7
gnu: r-heatmaply: Update to 0.15.2.
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* gnu/packages/cran.scm (r-heatmaply): Update to 0.15.2.
2018-09-05 20:03:08 +02:00
1fe9919a57
gnu: r-tsa: Update to 1.2.
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* gnu/packages/cran.scm (r-tsa): Update to 1.2.
[propagated-inputs]: Remove r-tseries.
2018-09-05 20:03:08 +02:00
be5642eb69
gnu: r-statnet-common: Update to 4.1.4.
...
* gnu/packages/cran.scm (r-statnet-common): Update to 4.1.4.
2018-09-05 20:03:08 +02:00
e32368c130
gnu: r-metap: Update to 1.0.
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* gnu/packages/cran.scm (r-metap): Update to 1.0.
[propagated-inputs]: Add r-rdpack.
2018-09-05 20:03:07 +02:00
d97d98e142
gnu: r-tinytex: Update to 0.8.
...
* gnu/packages/cran.scm (r-tinytex): Update to 0.8.
2018-09-05 20:03:07 +02:00
6f5b157e3d
gnu: r-pillar: Update to 1.3.0.
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* gnu/packages/cran.scm (r-pillar): Update to 1.3.0.
[propagated-inputs]: Add r-fansi.
2018-09-05 20:03:07 +02:00
69bf449bf1
gnu: r-xts: Update to 0.11-0.
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* gnu/packages/cran.scm (r-xts): Update to 0.11-0.
[native-inputs]: Remove.
2018-09-05 20:03:07 +02:00
1b3b2a72ee
gnu: r-mice: Update to 3.3.0.
...
* gnu/packages/cran.scm (r-mice): Update to 3.3.0.
2018-09-05 20:03:07 +02:00
a7265593d3
gnu: r-pan: Update to 1.6.
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* gnu/packages/cran.scm (r-pan): Update to 1.6.
2018-09-05 20:03:07 +02:00
e7630cc931
gnu: r-jomo: Update to 2.6-4.
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* gnu/packages/cran.scm (r-jomo): Update to 2.6-4.
[propagated-inputs]: Add r-ordinal.
2018-09-05 20:03:07 +02:00
b8f6e2f82a
gnu: Add r-ordinal.
...
* gnu/packages/cran.scm (r-ordinal): New variable.
2018-09-05 20:03:07 +02:00
dc66835226
gnu: Add r-ucminf.
...
* gnu/packages/cran.scm (r-ucminf): New variable.
2018-09-05 20:03:07 +02:00
45c156bf81
gnu: r-broom: Update to 0.5.0.
...
* gnu/packages/cran.scm (r-broom): Update to 0.5.0.
[propagated-inputs]: Add r-backports, r-dplyr, r-purrr, and r-tibble; remove
r-plyr and r-psych.
2018-09-05 20:03:07 +02:00
2d2b95d151
gnu: r-ipred: Update to 0.9-7.
...
* gnu/packages/cran.scm (r-ipred): Update to 0.9-7.
2018-09-05 20:03:07 +02:00
c73752cac5
gnu: r-pls: Update to 2.7-0.
...
* gnu/packages/cran.scm (r-pls): Update to 2.7-0.
2018-09-05 20:03:07 +02:00
b00e8ae771
gnu: r-glue: Update to 1.3.0.
...
* gnu/packages/cran.scm (r-glue): Update to 1.3.0.
2018-09-05 20:03:07 +02:00
b72de5b3f6
gnu: r-callr: Update to 3.0.0.
...
* gnu/packages/cran.scm (r-callr): Update to 3.0.0.
[propagated-inputs]: Add r-base64enc.
2018-09-05 20:03:07 +02:00
e3c1e93e35
gnu: r-reprex: Update to 0.2.0.
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* gnu/packages/cran.scm (r-reprex): Update to 0.2.0.
[propagated-inputs]: Add r-clipr, r-rlang, and r-withr.
2018-09-05 20:03:07 +02:00
2cdd9d4f83
gnu: r-reticulate: Update to 1.10.
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* gnu/packages/cran.scm (r-reticulate): Update to 1.10.
2018-09-05 20:03:07 +02:00
cb96d81be4
gnu: r-doby: Update to 4.6-2.
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* gnu/packages/cran.scm (r-doby): Update to 4.6-2.
2018-09-05 20:03:07 +02:00
589bd1c426
gnu: Add r-flextable.
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* gnu/packages/cran.scm (r-flextable): New variable.
2018-09-05 20:03:06 +02:00
78f2c08c0b
gnu: r-rmarkdown: Use latest version of Pandoc.
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* gnu/packages/statistics.scm (r-rmarkdown)[propagated-inputs]: Replace
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:06 +02:00
f9f4578ba0
Revert "gnu: ghc-tasty: Update to 1.1.0.3."
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This reverts commit 3ad6b89090
2018-09-05 20:03:06 +02:00
90708323a1
Revert "gnu: ghc-base-compat: Update to 0.10.4."
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This reverts commit 0fa2c552fc
2018-09-05 20:03:06 +02:00
0fd7d59dc3
gnu: Add r-moonbook.
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* gnu/packages/cran.scm (r-moonbook): New variable.
2018-09-05 20:03:06 +02:00
aaed237d1b
gnu: Add r-nortest.
...
* gnu/packages/cran.scm (r-nortest): New variable.
2018-09-05 20:03:06 +02:00
1f560b9cdb
gnu: Add r-sjmisc.
...
* gnu/packages/cran.scm (r-sjmisc): New variable.
2018-09-05 20:03:06 +02:00
cfc0631433
gnu: Add r-sjlabelled.
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* gnu/packages/cran.scm (r-sjlabelled): New variable.
2018-09-05 20:03:06 +02:00
de059e4bd3
gnu: Add r-prediction.
...
* gnu/packages/cran.scm (r-prediction): New variable.
2018-09-05 20:03:06 +02:00
bfee9ce88f
gnu: Add r-snakecase.
...
* gnu/packages/cran.scm (r-snakecase): New variable.
2018-09-05 20:03:06 +02:00
c183fa2688
gnu: Add r-officer.
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* gnu/packages/cran.scm (r-officer): New variable.
2018-09-05 20:03:06 +02:00
5dbe7aa920
gnu: r-googlesheets: Update to 0.3.0.
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* gnu/packages/statistics.scm (r-googlesheets): Update to 0.3.0.
[propagated-inputs]: Add r-tibble.
2018-09-05 20:03:06 +02:00
88cb7aa9e7
gnu: r-plotly: Update to 4.8.0.
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* gnu/packages/statistics.scm (r-plotly): Update to 4.8.0.
[propagated-inputs]: Add r-promises and r-rlang.
2018-09-05 20:03:06 +02:00
195eec737c
gnu: r-matrixstats: Update to 0.54.0.
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* gnu/packages/statistics.scm (r-matrixstats): Update to 0.54.0.
2018-09-05 20:03:06 +02:00
e2a2c3378e
gnu: r-r-rsp: Update to 0.43.0.
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* gnu/packages/statistics.scm (r-r-rsp): Update to 0.43.0.
2018-09-05 20:03:06 +02:00
eefa7c7f3d
gnu: r-r-utils: Update to 2.7.0.
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* gnu/packages/statistics.scm (r-r-utils): Update to 2.7.0.
2018-09-05 20:03:06 +02:00
e926159eb3
gnu: r-e1071: Update to 1.7-0.
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* gnu/packages/statistics.scm (r-e1071): Update to 1.7-0.
2018-09-05 20:03:05 +02:00
2aafa73a94
gnu: r-xml: Update to 3.98-1.16.
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* gnu/packages/statistics.scm (r-xml): Update to 3.98-1.16.
2018-09-05 20:03:05 +02:00
41f6685388
gnu: r-rcpparmadillo: Update to 0.9.100.5.0.
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* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.100.5.0.
2018-09-05 20:03:05 +02:00
19cb93be55
gnu: r-git2r: Update to 0.23.0.
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* gnu/packages/statistics.scm (r-git2r): Update to 0.23.0.
[native-inputs]: Add pkg-config.
2018-09-05 20:03:05 +02:00
2848c52c5e
gnu: r-roxygen2: Update to 6.1.0.
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* gnu/packages/statistics.scm (r-roxygen2): Update to 6.1.0.
[propagated-inputs]: Add r-pkgload and r-purrr.
[native-inputs]: Add r-knitr.
2018-09-05 20:03:05 +02:00
9b7e8df85b
gnu: r-ade4: Update to 1.7-13.
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* gnu/packages/statistics.scm (r-ade4): Update to 1.7-13.
2018-09-05 20:03:05 +02:00
7f38b31ecb
gnu: r-xtable: Update to 1.8-3.
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* gnu/packages/statistics.scm (r-xtable): Update to 1.8-3.
2018-09-05 20:03:05 +02:00
6b02569f1d
gnu: r-dbplyr: Update to 1.2.2.
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* gnu/packages/statistics.scm (r-dbplyr): Update to 1.2.2.
2018-09-05 20:03:05 +02:00
3299bc1c5e
gnu: r-yaml: Update to 2.2.0.
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* gnu/packages/statistics.scm (r-yaml): Update to 2.2.0.
2018-09-05 20:03:05 +02:00
2a96a093ec
gnu: r-evaluate: Update to 0.11.
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* gnu/packages/statistics.scm (r-evaluate): Update to 0.11.
2018-09-05 20:03:05 +02:00
3bf390279d
gnu: r-scales: Update to 1.0.0.
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* gnu/packages/statistics.scm (r-scales): Update to 1.0.0.
[propagated-inputs]: Remove r-dichromat and r-plyr.
2018-09-05 20:03:05 +02:00
97c81cc174
gnu: r-stringi: Update to 1.2.4.
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* gnu/packages/statistics.scm (r-stringi): Update to 1.2.4.
2018-09-05 20:03:05 +02:00
e362be8e89
gnu: Add r-pkgload.
...
* gnu/packages/cran.scm (r-pkgload): New variable.
2018-09-05 20:03:05 +02:00
4f8247b54b
gnu: Add r-pkgbuild.
...
* gnu/packages/cran.scm (r-pkgbuild): New variable.
2018-09-05 20:03:05 +02:00
1ec1989f80
gnu: r-httpuv: Update to 1.4.5.
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* gnu/packages/web.scm (r-httpuv): Update to 1.4.5.
[native-inputs]: Add pkg-config.
2018-09-05 20:03:05 +02:00
f077174178
gnu: r-scran: Update to 1.8.4.
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* gnu/packages/bioinformatics.scm (r-scran): Update to 1.8.4.
2018-09-05 20:03:05 +02:00
8e44ff0c0d
gnu: r-scater: Update to 1.8.4.
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* gnu/packages/bioinformatics.scm (r-scater): Update to 1.8.4.
2018-09-05 20:03:05 +02:00
e69c07e61a
gnu: r-hdf5array: Update to 1.8.1.
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* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.8.1.
2018-09-05 20:03:04 +02:00
16527f1cbc
gnu: r-ggbio: Update to 1.28.5.
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* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.28.5.
[propagated-inputs]: Add r-rlang.
2018-09-05 20:03:04 +02:00
70daf9362b
gnu: r-biovizbase: Update to 1.28.2.
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* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.28.2.
[propagated-inputs]: Add r-rlang.
2018-09-05 20:03:04 +02:00
ff7c7d62f4
gnu: r-keggrest: Update to 1.20.1.
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* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.20.1.
2018-09-05 20:03:04 +02:00
3c55304688
gnu: r-edaseq: Update to 2.14.1.
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* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.14.1.
2018-09-05 20:03:04 +02:00
eb251fe524
gnu: r-igraph: Update to 1.2.2.
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* gnu/packages/graph.scm (r-igraph): Update to 1.2.2.
2018-09-05 20:03:04 +02:00
c273bcdfce
gnu: r-diffusionmap: Update to 1.1-0.1.
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* gnu/packages/graph.scm (r-diffusionmap): Update to 1.1-0.1.
2018-09-05 20:03:04 +02:00
6f6aef80e3
gnu: r-seurat: Update to 2.3.4.
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* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.4.
[source]: Remove snippet.
[arguments]: Remove.
[native-inputs]: Remove.
[propagated-inputs]: Remove r-caret, r-diffusionmap, r-fnn, r-gdata, r-ranger,
r-stringr, r-tclust, and rvgam; add r-httr.
2018-09-05 20:03:04 +02:00
07bd90ce90
gnu: r-msnbase: Update to 2.6.3.
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* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.6.3.
2018-09-05 20:03:04 +02:00
4ee8c37cca
gnu: r-maldiquant: Update to 1.18.
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* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.18.
2018-09-05 20:03:04 +02:00
48b21f8b6b
gnu: r-seqminer: Update to 6.1.
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* gnu/packages/bioinformatics.scm (r-seqminer): Update to 6.1.
2018-09-05 20:03:04 +02:00
ad2ed8d01f
gnu: r-genomicfeatures: Update to 1.32.2.
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* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.32.2.
2018-09-05 20:03:04 +02:00
f2e79823c6
gnu: r-rtracklayer: Update to 1.40.6.
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* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.40.6.
2018-09-05 20:03:04 +02:00
aea1b6fb8a
gnu: r-delayedarray: Update to 0.6.5.
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* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.6.5.
2018-09-05 20:03:04 +02:00
3e61c2a8b1
gnu: r-rsamtools: Update to 1.32.3.
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* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.32.3.
2018-09-05 20:03:04 +02:00
a02340058c
gnu: r-biocparallel: Update to 1.14.2.
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* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.14.2.
2018-09-05 20:03:04 +02:00
1d56c79f86
gnu: r-genomicranges: Update to 1.32.6.
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* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.32.6.
2018-09-05 20:03:04 +02:00
688cb08527
gnu: r-limma: Update to 3.36.3.
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* gnu/packages/bioinformatics.scm (r-limma): Update to 3.36.3.
2018-09-05 20:03:03 +02:00
Ludovic Courtès