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2020-10-30gnu: Add r-perfmeas.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-perfmeas): New variable.
2020-10-06gnu: r-bgx: Update to 1.54.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bgx): Update to 1.54.1.
2020-10-06gnu: r-xcms: Update to 3.10.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-xcms): Update to 3.10.2.
2020-10-06gnu: r-atacseqqc: Update to 1.12.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.12.5.
2020-10-06gnu: r-gosemsim: Update to 2.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.14.2.
2020-10-06gnu: r-karyoploter: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-karyoploter): Update to 1.14.1.
2020-10-06gnu: r-diffbind: Update to 2.16.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.16.2.
2020-10-06gnu: r-fhtest: Update to 1.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-fhtest): Update to 1.5.
2020-10-06gnu: r-interval: Update to 1.1-0.7.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-interval): Update to 1.1-0.7.
2020-10-06gnu: r-activedriverwgs: Update to 1.1.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-activedriverwgs): Update to 1.1.1.
2020-09-30gnu: Fix package references.Efraim Flashner
* gnu/packages/algebra.scm (iml)[inputs]: Correctly refer to package inputs. * gnu/packages/astronomy.scm (xplanet), * gnu/packages/audio.scm (redkite, libaudec, lv2lint, lv2toweb), * gnu/packages/bioconductor.scm (r-cummerbund), * gnu/packages/chicken.scm (chicken), * gnu/packages/conky.scm (conky), * gnu/packages/cran.scm (r-latex2exp), * gnu/packages/crates-io.scm (rust-rgb), * gnu/packages/databases.scm (mariadb), * gnu/packages/diffoscope.scm (reprotest), * gnu/packages/file-systems.scm (glusterfs), * gnu/packages/finance.scm (electron-cash), * gnu/packages/games.scm (rinutils, ksudoku, kdiamond, kigo), * gnu/packages/geo.scm (grass), * gnu/packages/gnome.scm (libmediaart, gnome-contacts, geoclue), * gnu/packages/gnucash.scm (aqbanking), * gnu/packages/image.scm (mtpaint), * gnu/packages/kde-internet.scm (kopete, ktorrent), * gnu/packages/kde-utils.scm (kmousetool, kmouth, kronometer), * gnu/packages/linphone.scm (liblinphone), * gnu/packages/maths.scm (ppl), * gnu/packages/mercury.scm (mercury-minimal), * gnu/packages/music.scm (bjumblr, bschaffl, lsp-plugins, spectacle-analyzer, helm, tap-lv2, wolf-shaper, shiru-lv2), * gnu/packages/networking.scm (restinio), * gnu/packages/prolog.scm (swi-prolog), * gnu/packages/python-web.scm (gunicorn), * gnu/packages/python-xyz.scm (python-docusign-esign), * gnu/packages/ruby.scm (ruby-cucumber, ruby_version, ruby-addressable), * gnu/packages/sagemath.scm (python-cypari2), * gnu/packages/skarnet.scm (s6-linux-init), * gnu/packages/vpn.scm (sshuttle), * gnu/packages/web.scm (libcyaml), * gnu/packages/xdisorg.scm (kbdd), * gnu/packages/xorg.scm (xpra): Same.
2020-09-28gnu: r-chippeakanno: Update to 3.22.4.Roel Janssen
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.22.4.
2020-09-23gnu: Fix typoes in package descriptions.Tobias Geerinckx-Rice
* gnu/packages/audio.scm (caps-plugins-lv2)[synopsis]: Fix typo. * gnu/packages/bioconductor.scm (r-karyoploter, r-anota, r-gcrma) (r-bigmemoryextras)[description]: Likewise. * gnu/packages/cran.scm (r-geometry)[synopsis]: Likewise. (r-stringdist, r-patchwork, r-depth, r-tea)[description]: Likewise. * gnu/packages/crates-io.scm (rust-assert-fs-0.11, rust-notify-4) (rust-tokio-fs-0.1)[synopsis, description]: Likewise. (rust-blas-sys-0.7)[description]: Likewise. (rust-fs-extra-1.1, rust-xattr-0.2)[synopsis]: Likewise. * gnu/packages/databases.scm (perl-mysql-config)[description]: Likewise. * gnu/packages/disk.scm (hddtemp)[description]: Likewise. * gnu/packages/django.scm (python-djangorestframework)[description]: Likewise. * gnu/packages/documentation.scm (doc++)[description]: Likewise. * gnu/packages/emacs-xyz.scm (emacs-kakoune, emacs-pyim-basedict, eless) (emacs-scpaste)[description]: Likewise. * gnu/packages/file-systems.scm (dbxfs)[description]: Likewise. * gnu/packages/finance.scm (python-stdnum)[description]: Likewise. * gnu/packages/fontutils.scm (woff2)[description]: Likewise. * gnu/packages/games.scm (openttd-opengfx)[description]: Likewise. * gnu/packages/gnome-xyz.scm (gnome-shell-extension-topicons-redux) [description]: Likewise. * gnu/packages/gnome.scm (libgrss)[description]: Likewise. * gnu/packages/golang.scm (go-github-com-mitchellh-reflectwalk) [description]: Likewise. (go-github-com-go-git-go-billy)[synopsis, description]: Likewise. * gnu/packages/haskell-check.scm (ghc-inspection-testing)[description]: Likewise. * gnu/packages/haskell-web.scm (ghc-yesod-form)[description]: Likewise. * gnu/packages/haskell-xyz.scm (ghc-hex)[description]: Likewise. * gnu/packages/hyperledger.scm (hyperledger-iroha-ed25519)[description]: Likewise. * gnu/packages/java.scm (java-mail)[synopsis]: Likewise. (java-native-access-platform)[description]: Likewise. * gnu/packages/kde-frameworks.scm (kactivities-stats)[description]: Likewise. * gnu/packages/kde-utils.scm (krusader)[description]: Likewise. * gnu/packages/language.scm (praat)[description]: Likewise. * gnu/packages/linux.scm (light)[description]: Likewise. * gnu/packages/lisp-xyz.scm (sbcl-hu.dwim.defclass-star)[description]: Likewise. * gnu/packages/mail.scm (dovecot-trees, sieve-connect)[description]: Likewise. * gnu/packages/ocaml.scm (ocaml-opam-file-format, ocaml-cppo) (ocaml4.07-ppx-variants-conv)[description]: Likewise. * gnu/packages/perl.scm (perl-convert-binhex)[description]: Likewise. * gnu/packages/python-crypto.scm (python-ecdsa)[description]: Likewise. * gnu/packages/python-web.scm (python-html5lib)[synopsis, description]: Likewise. (python-venusian)[synopsis]: Likewise. * gnu/packages/python-xyz.scm (python-readlike, python-gssapi) (python-flufl-i18n)[description]: Likewise. (python-pox, python-watchdog, python-xattr)[synopsis, description]: Likewise. * gnu/packages/ruby.scm (ruby-sorcerer)[description]: Likewise. * gnu/packages/rust-apps.scm (watchexec)[description]: Likewise. * gnu/packages/rust.scm (mrustc)[synopsis]: Likewise. * gnu/packages/shells.scm (s-shell)[description]: Likewise. * gnu/packages/ssh.scm (sshpass)[description]: Likewise. * gnu/packages/terminals.scm (beep)[description]: Likewise. * gnu/packages/web.scm (perl-lwp-useragent-cached)[description]: Likewise. * gnu/packages/wv.scm (wv)[description]: Likewise.
2020-09-14gnu: r-wgcna: Move to (gnu packages bioconductor).Ricardo Wurmus
This is a follow-up to commit 6e0ab26f31cd2bb7e5d88719d3d458df68c1963e. * gnu/packages/cran.scm (r-wgcna): Move from here... * gnu/packages/bioconductor.scm (r-wgcna): ...to here.
2020-09-14gnu: r-fithic: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-fithic): Move from here... * gnu/packages/bioconductor.scm (r-fithic): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-hitc: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-hitc): Move from here... * gnu/packages/bioconductor.scm (r-hitc): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-hdf5array: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-hdf5array): Move from here... * gnu/packages/bioconductor.scm (r-hdf5array): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-rhdf5lib: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-rhdf5lib): Move from here... * gnu/packages/bioconductor.scm (r-rhdf5lib): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-beachmat: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-beachmat): Move from here... * gnu/packages/bioconductor.scm (r-beachmat): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-singlecellexperiment: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Move from here... * gnu/packages/bioconductor.scm (r-singlecellexperiment): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-scater: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-scater): Move from here... * gnu/packages/bioconductor.scm (r-scater): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-scran: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-scran): Move from here... * gnu/packages/bioconductor.scm (r-scran): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-delayedmatrixstats: Move to (gnu packages bioconductor).zimoun
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Move from here... * gnu/packages/bioconductor.scm (r-delayedmatrixstats): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-rgraphviz: Move to (gnu packages bioconductor).zimoun
* gnu/packages/graph.scm (r-rgraphviz): Move from here... * gnu/packages/bioconductor.scm (r-rgraphviz): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-preprocesscore: Move to (gnu packages bioconductor).zimoun
* gnu/packages/statistics.scm (r-preprocesscore): Move from here... * gnu/packages/bioconductor.scm (r-preprocesscore): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-fourcseq: Move to (gnu packages bioconductor).zimoun
* gnu/packages/cran.scm (r-fourcseq): Move from here... * gnu/packages/bioconductor.scm (r-fourcseq): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-14gnu: r-activedriverwgs: Update to 1.1.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-activedriverwgs): Update to 1.1.0. [propagated-inputs]: Remove r-plyr. [native-inputs]: Add r-knitr.
2020-09-11gnu: r-codedepends: Comment why it is in bioconductor.scm.zimoun
* gnu/packages/bioconductor.scm (r-codedepends): Add comment.
2020-09-11gnu: Add r-fhtest.Peter Lo
* gnu/packages/bioconductor.scm (r-fhtest): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-interval.Peter Lo
* gnu/packages/bioconductor.scm (r-interval): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-icens.Peter Lo
* gnu/packages/bioconductor.scm (r-icens): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-04gnu: r-cicero: Update to 1.6.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cicero): Update to 1.6.2.
2020-09-04gnu: r-mixomics: Update to 6.12.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.12.2.
2020-09-04gnu: r-atacseqqc: Update to 1.12.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.12.4.
2020-09-04gnu: r-gkmsvm: Update to 0.81.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-gkmsvm): Update to 0.81.0.
2020-09-04gnu: r-chippeakanno: Update to 3.22.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.22.3.
2020-08-20gnu: r-biocset: Update to 1.2.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocset): Update to 1.2.2.
2020-08-20gnu: r-experimenthub: Update to 1.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-experimenthub): Update to 1.14.2.
2020-08-20gnu: r-variancepartition: Update to 1.18.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.18.3.
2020-08-20gnu: r-rsubread: Update to 2.2.6.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.2.6.
2020-08-20gnu: r-rbowtie: Update to 1.28.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rbowtie): Update to 1.28.1.
2020-08-20gnu: r-biocfilecache: Update to 1.12.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocfilecache): Update to 1.12.1.
2020-08-20gnu: r-rbowtie2: Update to 1.10.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rbowtie2): Update to 1.10.1.
2020-08-20gnu: r-motifstack: Update to 1.32.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-motifstack): Update to 1.32.1.
2020-08-20gnu: r-clusterprofiler: Update to 3.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 3.16.1. [propagated-inputs]: Add r-rlang.
2020-08-20gnu: r-gosemsim: Update to 2.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.14.1.
2020-08-20gnu: r-oligo: Update to 1.52.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-oligo): Update to 1.52.1.
2020-08-20gnu: r-oligoclasses: Update to 1.50.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-oligoclasses): Update to 1.50.4.
2020-08-16gnu: r-abseqr: Add pandoc-citeproc.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-abseqr)[inputs]: Add pandoc-citeproc.
2020-08-16gnu: r-abseqr: Use pandoc instead of ghc-pandoc.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-abseqr)[inputs]: Replace ghc-pandoc with pandoc.
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