| Commit message (Collapse) | Author | Age |
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* gnu/packages/bioinformatics.scm (r-qtl2): New variable.
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stumpwm to wm.
* gnu/local.mk: Include lisp-xyz.scm.
* gnu/packages/lisp-xyz.scm: New file.
* gnu/packages/lisp.scm: Move all lisp libraries to lisp-xyz.scm, uglify-js to
javascript.scm and stumpwm to wm.scm.
* gnu/packages/javascript.scm: Add uglify-js.
* gnu/packages/wm.scm: Add stumpwm.
* gnu/packages/bioinformatics.scm: Find uglify-js in javascript.scm.
* gnu/packages/machine-learning.scm: Depend on lisp-xyz.scm instead of lisp.scm.
* gnu/packages/web.scm: Find uglify-js in javascript.scm.
* gnu/packages/web-browsers.scm: Depend on lisp-xyz.scm instead of lisp.scm.
* guix/build-system/minify.scm (default-uglify-js): Find uglify-js in
javascript module instead of lisp.
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javascript and stumpwm to wm."
This reverts commit ac1ee30f4f7f9d0ae2a655676b0e8b9eb90a35dd, which
still breaks ‘guix pull’.
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stumpwm to wm.
* gnu/local.mk: Include lisp-xyz.scm.
* gnu/packages/lisp-xyz.scm: New file.
* gnu/packages/lisp.scm: Move all lisp libraries to lisp-xyz.scm, uglify-js to
javascript.scm and stumpwm to wm.scm.
* gnu/packages/javascript.scm: Add uglify-js.
* gnu/packages/wm.scm: Add stumpwm.
* gnu/packages/bioinformatics.scm: Find uglify-js in javascript.scm.
* gnu/packages/machine-learning.scm: Depend on lisp-xyz.scm instead of lisp.scm.
* gnu/packages/web.scm: Find uglify-js in javascript.scm.
* gnu/packages/web-browsers.scm: Depend on lisp-xyz.scm instead of lisp.scm.
* guix/build-system/minify.scm (default-uglify-js): Find uglify-js in
javascript module instead of lisp.
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* gnu/packages/databases.scm (mariadb): Split into out, lib and dev.
(perl-dbd-mysql, python-mysqlclient): Adjust dependencies.
* gnu/packages/bioinformatics.scm (kentutils): Adjust dependencies.
* gnu/packages/cran.scm (r-rmysql): Adjust dependencies.
* gnu/packages/emacs-xyz.scm (emacs-emacsql): Adjust dependencies.
* gnu/packages/kodi.scm (kodi): Adjust dependencies.
* gnu/packages/qt.scm (qt, qtbase): Adjust dependencies.
* gnu/packages/ruby.scm (ruby-mysql2): Adjust dependencies.
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* gnu/packages/python-xyz.scm (python-scipy, python2-scipy): Move these from
here...
* gnu/packages/python-science.scm (python-scipy, python2-scipy): ...to here.
* gnu/packages/bioinformatics.scm, gnu/packages/machine-learning.scm,
gnu/packages/statistics.scm: Adjust module imports.
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stumpwm to wm."
This reverts commit abf43a67d5929bf279edce3e790ef1348dda32a5 as it broke "guix pull".
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* gnu/local.mk: Include lisp-xyz.scm.
* gnu/packages/lisp-xyz.scm: New file.
* gnu/packages/lisp.scm: Move all lisp libraries to lisp-xyz.scm, uglify-js to
javascript.scm and stumpwm to wm.scm.
* gnu/packages/javascript.scm: Add uglify-js.
* gnu/packages/wm.scm: Add stumpwm.
* gnu/packages/bioinformatics.scm: Find uglify-js in javascript.scm.
* gnu/packages/machine-learning.scm: Depend on lisp-xyz.scm instead of lisp.scm.
* gnu/packages/web.scm: Find uglify-js in javascript.scm.
* gnu/packages/web-browsers.scm: Depend on lisp-xyz.scm instead of lisp.scm.
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* gnu/packages/bioinformatics.scm (libdivsufsort): Move to ...
* gnu/packages/datastructures.scm: ... here.
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* gnu/packages/bioinformatics.scm (bioperl-minimal)[source]: Download
using git-fetch.
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* gnu/packages/bioinformatics.scm (ngless): Update to 1.0.1.
[arguments]: Add a 'create-Versions.hs' phase that patches the Makefile
and invokes 'make' to generate a required file.
[inputs]: Remove 'ghc-chart', 'ghc-chart-cairo', and
'ghc-conduit-combinators'; add 'ghc-diagrams-core', 'ghc-diagrams-lib',
'ghc-diagrams-svg', and 'ghc-tar-conduit'.
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* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.7.0.
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* gnu/packages/admin.scm (detox, neofetch),
gnu/packages/algebra.scm (python-fpylll),
gnu/packages/bioinformatics.scm (tbsp, genrich),
gnu/packages/crypto.scm (hpenc),
gnu/packages/digest.scm (xxhash),
gnu/packages/emacs-xyz.scm (emacs-tiny, emacs-ergoemacs-mode,
emacs-make-it-so, emacs-poet-theme, emacs-deft, emacs-scribble-mode,
emacs-helm-mu, emacs-unidecode, emacs-diff-hl, emacs-helm-exwm,
emacs-gif-screencast, emacs-exec-path-from-shell),
gnu/packages/engineering.scm (gpx),
gnu/packages/freedesktop.scm (waylandpp),
gnu/packages/golang.scm (go-github-com-sirupsen-logrus,
go-github-com-shirou-gopsutil),
gnu/packages/guile-xyz.scm (guile-studio, guile-picture-language,
jupyter-guile-kernel),
gnu/packages/image-viewers.scm (qview),
gnu/packages/java-maths.scm (java-jblas),
gnu/packages/llvm.scm (libclc),
gnu/packages/logging.scm (spdlog),
gnu/packages/ocaml.scm (ocaml-cstruct, ocaml-zarith),
gnu/packages/terminals.scm (libtsm),
gnu/packages/tigervnc.scm (tigervnc-client),
gnu/packages/xdisorg.scm (xcalib, xbanish) [source]: Add file-name.
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* gnu/packages/abiword.scm (abiword)[arguments]: Do not pass "-std=c++11" to
the GCC command line.
* gnu/packages/aidc.scm (zbar)[arguments]: Likewise.
* gnu/packages/android.scm (android-libbase, android-libcutils,
android-libziparchive, fastboot)[arguments]: Likewise.
* gnu/packages/audio.scm (azr3, guitarix, suil)[arguments]: Likewise.
* gnu/packages/bioinformatics.scm (bless)[arguments]: Likewise.
* gnu/packages/bittorrent.scm (libtorrent-rasterbar)[arguments]: Likewise.
* gnu/packages/code.scm (rtags)[arguments]: Likewise.
* gnu/packages/coq.scm (coq-gappa)[arguments]: Likewise.
* gnu/packages/emulators.scm (dolphin-emu)[arguments]: Likewise.
* gnu/packages/engineering.scm (xyce-serial, xyce-parallel)[arguments]: Likewise.
* gnu/packages/gnupg.scm (pinentry-qt)[arguments]: Likewise.
* gnu/packages/gobby.scm (libnet6, obby)[arguments]: Likewise.
* gnu/packages/graph.scm (python-faiss)[arguments]: Likewise.
* gnu/packages/graphics.scm (povray)[arguments]: Likewise.
* gnu/packages/image-processing.scm (opencv, itk-snap)[arguments]: Likewise.
* gnu/packages/image.scm (freeimage)[arguments]: Likewise.
* gnu/packages/kodi.scm (crossguid)[arguments]: Likewise.
* gnu/packages/music.scm (amsynth, qmidiarp, qmidiroute, seq24)[arguments]: Likewise.
* gnu/packages/pdf.scm (python-poppler-qt5)[arguments]: Likewise.
* gnu/packages/sagemath.scm (lcalc)[arguments]: Likewise.
* gnu/packages/video.scm (vlc, mlt, v4l-utils)[arguments]: Likewise.
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* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.3.
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* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.12.3.
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* gnu/packages/bioinformatics.scm (r-gwascat): Update to 2.16.1.
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* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.14.3.
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* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.8.1.
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* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.24.1.
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* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.28.1.
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* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.3.
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* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.3.
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* gnu/packages/bioinformatics.scm (bowtie1): Update to 1.2.3.
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* gnu/packages/bioinformatics.scm (methyldackel): New variable.
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* gnu/packages/bioinformatics.scm (r-velocyto): New variable.
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* gnu/packages/bioinformatics.scm (r-seurat): Update to 3.1.1.
[propagated-inputs]: Add r-httr.
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* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.2.
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* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.5.
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* gnu/packages/bioinformatics.scm (rcas-web)[arguments]: Add ‘find-RCAS’ phase.
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* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.28.3.
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* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.18.1.
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* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.2.
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* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.1.
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* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.18.3.
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* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.1.
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* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.1.
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* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.4.
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* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.1.
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* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.1.
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