| Age | Commit message (Expand) | Author |
|---|
| 2019-01-15 | gnu: Move Python compression packages to new module....* gnu/packages/compression.scm (python-lzo, python2-lzo, python-lz4,
python2-lz4, python-lzstring, python2-lzstring, bitshuffle,
bitshuffle-for-snappy): Move variables from here...
* gnu/packages/python-compression.scm: ...to this new module.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/bioinformatics.scm,
gnu/packages/java-compression.scm,
gnu/packages/xorg.scm: Adjust module references.
| Ricardo Wurmus |
| 2019-01-15 | gnu: Separate Python core packages from the rest....* gnu/packages/python.scm: Move hundreds of package definitions from here...
* gnu/packages/python-xyz.scm: ...to this new module.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/ada.scm,
gnu/packages/admin.scm,
gnu/packages/android.scm,
gnu/packages/audio.scm,
gnu/packages/backup.scm,
gnu/packages/benchmark.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/bittorrent.scm,
gnu/packages/calendar.scm,
gnu/packages/check.scm,
gnu/packages/chemistry.scm,
gnu/packages/cluster.scm,
gnu/packages/compression.scm,
gnu/packages/connman.scm,
gnu/packages/crypto.scm,
gnu/packages/cups.scm,
gnu/packages/databases.scm,
gnu/packages/dav.scm,
gnu/packages/direct-connect.scm,
gnu/packages/disk.scm,
gnu/packages/django.scm,
gnu/packages/dlang.scm,
gnu/packages/docker.scm,
gnu/packages/ebook.scm,
gnu/packages/elf.scm,
gnu/packages/emacs.scm,
gnu/packages/emulators.scm,
gnu/packages/engineering.scm,
gnu/packages/enlightenment.scm,
gnu/packages/finance.scm,
gnu/packages/fltk.scm,
gnu/packages/fontutils.scm,
gnu/packages/freedesktop.scm,
gnu/packages/game-development.scm,
gnu/packages/games.scm,
gnu/packages/geo.scm,
gnu/packages/gl.scm,
gnu/packages/glib.scm,
gnu/packages/gnome.scm,
gnu/packages/gnupg.scm,
gnu/packages/gnuzilla.scm,
gnu/packages/graph.scm,
gnu/packages/graphics.scm,
gnu/packages/graphviz.scm,
gnu/packages/gtk.scm,
gnu/packages/ham-radio.scm,
gnu/packages/image-processing.scm,
gnu/packages/image-viewers.scm,
gnu/packages/image.scm,
gnu/packages/irc.scm,
gnu/packages/jrnl.scm,
gnu/packages/julia.scm,
gnu/packages/kde-frameworks.scm,
gnu/packages/key-mon.scm,
gnu/packages/libffi.scm,
gnu/packages/libreoffice.scm,
gnu/packages/libusb.scm,
gnu/packages/lirc.scm,
gnu/packages/logging.scm,
gnu/packages/machine-learning.scm,
gnu/packages/mail.scm,
gnu/packages/mate.scm,
gnu/packages/maths.scm,
gnu/packages/medical.scm,
gnu/packages/messaging.scm,
gnu/packages/monitoring.scm,
gnu/packages/mp3.scm,
gnu/packages/mpd.scm,
gnu/packages/music.scm,
gnu/packages/networking.scm,
gnu/packages/nutrition.scm,
gnu/packages/openldap.scm,
gnu/packages/openstack.scm,
gnu/packages/package-management.scm,
gnu/packages/password-utils.scm,
gnu/packages/patchutils.scm,
gnu/packages/pdf.scm,
gnu/packages/photo.scm,
gnu/packages/polkit.scm,
gnu/packages/protobuf.scm,
gnu/packages/python-crypto.scm,
gnu/packages/python-web.scm,
gnu/packages/qt.scm,
gnu/packages/rdf.scm,
gnu/packages/ruby.scm,
gnu/packages/search.scm,
gnu/packages/selinux.scm,
gnu/packages/serialization.scm,
gnu/packages/shells.scm,
gnu/packages/simulation.scm,
gnu/packages/ssh.scm,
gnu/packages/statistics.scm,
gnu/packages/storage.scm,
gnu/packages/sync.scm,
gnu/packages/terminals.scm,
gnu/packages/textutils.scm,
gnu/packages/time.scm,
gnu/packages/tls.scm,
gnu/packages/tor.scm,
gnu/packages/tryton.scm,
gnu/packages/version-control.scm,
gnu/packages/video.scm,
gnu/packages/virtualization.scm,
gnu/packages/vpn.scm,
gnu/packages/web-browsers.scm,
gnu/packages/web.scm,
gnu/packages/wicd.scm,
gnu/packages/xdisorg.scm,
gnu/packages/xorg.scm: Update module references.
| Ricardo Wurmus |
| 2019-01-13 | gnu: r-biocgenerics: Move to bioconductor....* gnu/packages/bioinformatics.scm (r-biocgenerics): Move from here...
* gnu/packages/bioconductor.scm (r-biocgenerics): ...to here.
| Ricardo Wurmus |
| 2019-01-13 | gnu: r-annotate: Move to bioconductor....* gnu/packages/bioinformatics.scm (r-annotate): Move from here...
* gnu/packages/bioconductor.scm (r-annotate): ...to here.
| Ricardo Wurmus |
| 2019-01-13 | gnu: r-vegan: Move from bioinformatics to cran....* gnu/packages/bioinformatics.scm (r-vegan): Move from here...
* gnu/packages/cran.scm (r-vegan): ...to here.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-rtracklayer: Update to 1.42.1....* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.42.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-scater: Update to 1.10.1....* gnu/packages/bioinformatics.scm (r-scater): Update to 1.10.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-singlecellexperiment: Update to 1.4.1....* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Update to 1.4.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-rhdf5lib: Update to 1.4.2....* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.4.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-hdf5array: Update to 1.10.1....* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.10.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-qvalue: Update to 2.14.1....* gnu/packages/bioinformatics.scm (r-qvalue): Update to 2.14.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-gviz: Update to 1.26.4....* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.26.4.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-biovizbase: Update to 1.30.1....* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.30.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-ensembldb: Update to 2.6.3....* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.3.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-dirichletmultinomial: Update to 1.24.1....* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Update to 1.24.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-gage: Update to 2.32.1....* gnu/packages/bioinformatics.scm (r-gage): Update to 2.32.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-annotationhub: Update to 2.14.2....* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.14.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-edaseq: Update to 2.16.3....* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.16.3.
[propagated-inputs]: Add r-biocmanager.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-deseq: Update to 1.34.1....* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.34.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-msnid: Update to 1.16.1....* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.16.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-msnbase: Update to 2.8.3....* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.3.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-mzid: Update to 1.20.1....* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.20.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-mzr: Update to 2.16.1....* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.16.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-sva: Update to 3.30.1....* gnu/packages/bioinformatics.scm (r-sva): Update to 3.30.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-methylkit: Update to 1.8.1....* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.8.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-copywriter: Update to 2.14.1....* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.14.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-rhdf5: Update to 2.26.2....* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.26.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-tximport: Update to 1.10.1....* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.10.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-genomicalignments: Update to 1.18.1....* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.18.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-biostrings: Update to 2.50.2....* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-biocparallel: Update to 1.16.5....* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.16.5.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-limma: Update to 3.38.3....* gnu/packages/bioinformatics.scm (r-limma): Update to 3.38.3.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-variantannotation: Update to 1.28.8....* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.28.8.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-edger: Update to 3.24.3....* gnu/packages/bioinformatics.scm (r-edger): Update to 3.24.3.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-biocviews: Update to 1.50.10....* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.10.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-systempiper: Update to 1.16.1....* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.16.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-rbgl: Update to 1.58.1....* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.58.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-dexseq: Update to 1.28.1....* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.28.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-deseq2: Update to 1.22.2....* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.22.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-scran: Update to 1.10.2....* gnu/packages/bioinformatics.scm (r-scran): Update to 1.10.2.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-seqminer: Update to 7.1....* gnu/packages/bioinformatics.scm (r-seqminer): Update to 7.1.
| Ricardo Wurmus |
| 2019-01-12 | gnu: r-bookdown: Update to 0.9....* gnu/packages/bioinformatics.scm (r-bookdown): Update to 0.9.
| Ricardo Wurmus |
| 2019-01-12 | gnu: Move Java compression packages to new module....* gnu/packages/compression.scm (bitshuffle-for-snappy): Export variable.
(java-snappy, java-snappy-1, java-iq80-snappy, java-jbzip2, java-tukaani-xz):
Move these variables from here...
* gnu/packages/java-compression.scm: ...to this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/java.scm, gnu/packages/bioinformatics.scm: Adjust module
references.
| Ricardo Wurmus |
| 2019-01-11 | gnu: jamm: Remove broken "build" phase....* gnu/packages/bioinformatics.scm (jamm)[arguments]: Remove "build" phase.
| Ricardo Wurmus |
| 2019-01-07 | gnu: mantis: Limit to x86_64-linux....* gnu/packages/bioinformatics.scm (mantis)[supported-systems]: New field.
| Efraim Flashner |
| 2019-01-07 | gnu: Add mantis....* gnu/packages/bioinformatics.scm (mantis): New variable.
| Ricardo Wurmus |
| 2018-12-20 | gnu: discrover: Comment on attempt of minimal texlive-union....* gnu/packages/bioinformatics.scm (discrover): Comment on attempt of minimal
texlive-union.
| Pierre Neidhardt |
| 2018-12-17 | gnu: gess: Don't hardcode python version....* gnu/packages/bioinformatics.scm (gess)[arguments]: Replace hardcoded
python version with parameterized one.
| Efraim Flashner |
| 2018-12-05 | gnu: mash: Use C++ 14....I'm looking to upgrade capnproto, and mash fails to build with 0.7. Therefore,
tweak the compilation to allow it to build with 0.7. The package also builds
with the current version of capnproto. I got the idea of changing the c++
version from here [1].
1: https://github.com/marbl/Mash/issues/98
* gnu/packages/bioinformatics.scm (mash)[arguments]: Add new use-c++14 phase.
| Christopher Baines |
| 2018-12-04 | gnu: pigx-rnaseq: Update to 0.0.5....* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.5.
[inputs]: Replace snakemake-4 with snakemake.
| Ricardo Wurmus |
