| Commit message (Collapse) | Author | Age |
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* gnu/packages/python.scm (python-ipykernel): Update to 4.5.2.
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* gnu/packages/python.scm (python-jupyter-core): Update to 4.2.1.
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* gnu/packages/python.scm (python2-fastlmm): Update to 0.2.26.
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* gnu/packages/python.scm (python-pytz): Update to 2016.10.
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* gnu/packages/python.scm (python-pyyaml): Update to 3.12.
[source]: Use pypi-uri.
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* gnu/packages/python.scm (python-pygments): Update to 2.1.3.
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* gnu/packages/game-development.scm (tiled): Update to 0.18.0.
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As per the discussion at
<https://lists.gnu.org/archive/html/guix-devel/2016-12/msg01098.html>.
* build-aux/hydra/gnu-system.scm (demo-os): Remove.
(qemu-jobs): Remove 'qemu-image' job.
* build-aux/hydra/demo-os.scm: Remove.
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Partially fixes <http://bugs.gnu.org/25273>.
* gnu/packages/mc.scm (mc)[arguments]: Add new phase 'fix-absolutism.
This substitutes absolute file paths with functional file paths.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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* gnu/packages/gnupg.scm (pius): Update to 2.2.2-0.891687c.
[inputs]: Change GNUPG-2.0 to GNUPG (2.1).
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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* guix/scripts/offload.scm (connect-to-remote-daemon)
(store-import-channel, store-export-channel, send-files)
(retrieve-files): Move to (guix ssh).
(nonce): Add optional 'name' parameter and use it.
(retrieve-files*): New procedure.
(transfer-and-offload): Use it instead of 'retrieve-files', and add
first parameter to 'send-files'.
(assert-node-can-import): Likewise.
(assert-node-can-export): Use 'retrieve-files' instead of
'store-export-channel'.
* guix/ssh.scm: New file.
* configure.ac: Use 'GUIX_CHECK_GUILE_SSH' and define 'HAVE_GUILE_SSH'
Automake conditional.
* Makefile.am (MODULES) [HAVE_GUILE_SSH]: Add guix/ssh.scm.
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* gnu/packages/terminals.scm (libtermkey): Update to 0.19.
Co-authored-by: Leo Famulari <leo@famulari.name>
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* gnu/packages/patches/libpng-fix-null-ptr-dereference.patch: Rename to ...
* gnu/packages/patches/libpng-CVE-2016-10087.patch: ... this.
* gnu/local.mk (dist_patch_DATA): Adjust.
* gnu/packages/image.scm (libpng/fixed)[source]: Use renamed patch.
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* Makefile.am (MODULES): Add 'guix/import/crate.scm' and
'guix/scripts/import/crate.scm' only when HAVE_GUILE_JSON.
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* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.37.
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Suggested by Raoul Bonnal <ilpuccio.febo@gmail.com>.
* gnu/packages/bioinformatics.scm (multiqc): Update to 0.9.
[origin]: Add patch.
* gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
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* gnu/packages/freedesktop.scm (elogind) [inputs]: Add acl.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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Suggested by Chris Marusich <cmmarusich@gmail.com>.
* gnu/services/desktop.scm (%desktop-services): Add 'mtp' service via
call to 'simple-service'.
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* gnu/packages/mpd.scm (mpd)[arguments]: Add 'install-service-files' phase.
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* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.2.
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* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.42.1.
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* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.7.
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* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.2.
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* gnu/packages/bioinformatics.scm (r-edger): Update to 3.16.5.
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* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.1.
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* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.1.
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* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.1.
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* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.2.1.
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* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.14.1.
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* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.52.1.
[propagated-inputs]: Add r-rcurl.
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* gnu/packages/mail.scm (khard): Update to 0.11.3.
[arguments]: Build with python instead of python-2. Remove
'disable-egg-compression' phase.
[propagated-inputs]: Don't use python-2 variants of propagated-inputs.
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* gnu/packages/statistics.scm (r-rsqlite): Update to 1.1-1.
[propagated-inputs]: Add r-bh, r-memoise, r-plogr, and r-rcpp.
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* gnu/packages/statistics.scm (r-plogr): New variable.
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* gnu/packages/statistics.scm (r-hmisc): Update to 4.0-1.
[propagated-inputs]: Remove r-cluster, r-foreign, r-lattice, r-nnet, and
r-rpart; add r-base64.
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* gnu/packages/statistics.scm (r-base64): New variable.
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* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.3.
[propagated-inputs]: Remove r-tibble; add r-rprojroot.
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* gnu/packages/statistics.scm (r-rprojroot): New variable.
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* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.600.1.0.
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Update to
7.600.1.
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* gnu/packages/maths.scm (armadillo): Update to 7.600.2.
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* gnu/packages/statistics.scm (r-zoo): Update to 1.7-14.
[propagated-inputs]: Remove r-lattice.
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* gnu/packages/statistics.scm (r-fastcluster): Update to 1.1.22.
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* gnu/packages/statistics.scm (r-plotly): Update to 4.5.6.
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* gnu/packages/statistics.scm (r-r-rsp): Update to 0.40.0.
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* gnu/packages/statistics.scm (r-r-utils): Update to 2.5.0.
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* gnu/packages/statistics.scm (r-coda): Update to 0.19-1.
[propagated-inputs]: Remove r-lattice.
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* gnu/packages/statistics.scm (r-chron): Update to 2.3-48.
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* gnu/packages/statistics.scm (r-knitr): Update to 1.15.1.
[propagated-inputs]: Remove r-formatr.
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* gnu/packages/statistics.scm (r-bh): Update to 1.62.0-1.
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* gnu/packages/statistics.scm (r-svglite): Update to 1.2.0.
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* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.3.
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