From d1ea2b7c8b76dea810102379112b05d344b02530 Mon Sep 17 00:00:00 2001 From: zimoun Date: Fri, 21 May 2021 22:25:59 +0200 Subject: gnu: r-dirichletmultinomial: Move to (gnu packages bioconductor). * gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Move from here... * gnu/packages/bioconductor.scm (r-dirichletmultinomial): ...to here. --- gnu/packages/bioinformatics.scm | 29 ----------------------------- 1 file changed, 29 deletions(-) (limited to 'gnu/packages/bioinformatics.scm') diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 38f3298c23..dd095b6e05 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9168,35 +9168,6 @@ their variance is independent of the mean, and they are usually more sensitive and specific in detecting differential transcription.") (license license:artistic2.0))) -(define-public r-dirichletmultinomial - (package - (name "r-dirichletmultinomial") - (version "1.32.0") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "DirichletMultinomial" version)) - (sha256 - (base32 - "098zql6ryd1b0gkq4cjybblyh0x8xidxxfygqq5a5x9asl8y4vsk")))) - (properties - `((upstream-name . "DirichletMultinomial"))) - (build-system r-build-system) - (inputs - `(("gsl" ,gsl))) - (propagated-inputs - `(("r-biocgenerics" ,r-biocgenerics) - ("r-iranges" ,r-iranges) - ("r-s4vectors" ,r-s4vectors))) - (home-page "https://bioconductor.org/packages/DirichletMultinomial") - (synopsis "Dirichlet-Multinomial mixture models for microbiome data") - (description - "Dirichlet-multinomial mixture models can be used to describe variability -in microbial metagenomic data. This package is an interface to code -originally made available by Holmes, Harris, and Quince, 2012, PLoS ONE 7(2): -1-15.") - (license license:lgpl3))) - (define-public r-ensembldb (package (name "r-ensembldb") -- cgit v1.2.3 ut class='txt' type='search' size='10' name='q' value=''/>
path: root/gnu/packages/serialization.scm
-by: Leo Famulari <leo@famulari.name>
AgeCommit message (Expand)Author
2023-07-30gnu: capnproto: Update to 1.0 [fixes CVE-2022-46149]....* gnu/packages/serialization.scm (capnproto): Update to 1.0. [arguments]: Remove obsolete 'do-not-require-/etc/services phase. Don't explicitly return #t from phases. Tobias Geerinckx-Rice
2023-07-29gnu: python-msgspec: Regenerate autogenerated file....* gnu/packages/serialization.scm (python-msgspec)[source]: Add a snippet to delete autogenerated "msgspec/atof_consts.h". [arguments]: Add new phase to regenerate that file. Vinicius Monego
2023-06-25gnu: Add python-msgspec....* gnu/packages/serialization.scm (python-msgspec): New variable. Signed-off-by: Vinicius Monego <monego@posteo.net> Sharlatan Hellseher
2023-05-03gnu: Add libfyaml....* gnu/packages/serialization.scm (libfyaml): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr> Alexey Abramov
2023-04-24gnu: cereal-1.3.0: Update doctest.h....* gnu/packages/serialization.scm (cereal-1.3.0)[native-inputs]: Add gcc-10 and the sources of the cereal package. [arguments]: Add a phase to replace the included doctest.h with the variant from the cereal sources; disable -Werror. [source]: Delete included doctest.h. Ricardo Wurmus
2023-04-24gnu: cereal: Use GCC 10....* gnu/packages/serialization.scm (cereal)[native-inputs]: Add gcc-10. Ricardo Wurmus
2023-03-20Merge remote-tracking branch 'origin/master' into core-updatesAndreas Enge
2023-03-05gnu: flatbuffers: Add version 23.1.21....* gnu/packages/serialization.scm (flatbuffers-next): New variable as flatbuffers@2.0.0 is depended on by tensorflow-lite so we cannot just upgrade directly, so adding current release flatbuffers@23.1.21. Co-authored-by: Ludovic Courtès <ludo@gnu.org> Andy Tai
2023-01-30Merge remote-tracking branch 'origin/master' into core-updates... Conflicts: doc/guix.texi gnu/local.mk gnu/packages/admin.scm gnu/packages/base.scm gnu/packages/chromium.scm gnu/packages/compression.scm gnu/packages/databases.scm gnu/packages/diffoscope.scm gnu/packages/freedesktop.scm gnu/packages/gnome.scm gnu/packages/gnupg.scm gnu/packages/guile.scm gnu/packages/inkscape.scm gnu/packages/llvm.scm gnu/packages/openldap.scm gnu/packages/pciutils.scm gnu/packages/ruby.scm gnu/packages/samba.scm gnu/packages/sqlite.scm gnu/packages/statistics.scm gnu/packages/syndication.scm gnu/packages/tex.scm gnu/packages/tls.scm gnu/packages/version-control.scm gnu/packages/xml.scm guix/build-system/copy.scm guix/scripts/home.scm Efraim Flashner
2022-11-22gnu: Remove libbson....This package fails to build and has been deprecated since 2018: https://github.com/mongodb/libbson * gnu/packages/serialization.scm (libbson): Remove variable. Marius Bakke
kiasoc5
2022-01-02gnu: wlr-randr: Update to 0.2.0....* gnu/packages/wm.scm (wrl-randr): Update to 0.2.0. Signed-off-by: Leo Famulari <leo@famulari.name> kiasoc5
2021-12-29gnu: menumaker: Update to 0.99.14....* gnu/packages/wm.scm (menumaker): Update to 0.99.14. Tobias Geerinckx-Rice
2021-12-17gnu: Remove unneeded uses of custom GCC versions....* gnu/packages/bioinformatics.scm (libmaus2, biobambam2)[native-inputs]: Remove GCC-10. * gnu/packages/game-development.scm (libresprite, python-pyxel)[native-inputs]: Likewise. * gnu/packages/lua.scm (emilua)[native-inputs]: Likewise. * gnu/packages/radio.scm (sdr++)[native-inputs]: Likewise. * gnu/packages/wm.scm (fnott)[native-inputs]: Likewise. * gnu/packages/text-editors.scm (kakoune)[native-inputs]: Likewise. (scintilla)[native-inputs]: Remove GCC-9. * gnu/packages/build-tools.scm (bear)[native-inputs]: Likewise. * gnu/packages/cpp.scm (magic-enum)[native-inputs]: Likewise. * gnu/packages/games.scm (openttd)[native-inputs]: Likewise. (schiffbruch)[native-inputs]: Remove GCC-11. * gnu/packages/music.scm (liquidsfz, geonkick)[native-inputs]: Remove GCC-9. * gnu/packages/fcitx5.scm (fcitx5, libime, fcitx5-configtool)[native-inputs]: Likewise. * gnu/packages/wine.scm (dxvk32)[native-inputs]: Likewise. * gnu/packages/ftp.scm (libfilezilla)[native-inputs]: Remove GCC-8. * gnu/packages/image.scm (blurhash)[native-inputs]: Likewise. * gnu/packages/jami.scm (libring)[native-inputs]: Likewise. * gnu/packages/pdf.scm (xournalpp)[native-inputs]: Likewise. * gnu/packages/telegram.scm (webrtc-for-telegram-desktop, telegram-desktop)[native-inputs]: Likewise. Marius Bakke
2021-12-13gnu: Further simplify package inputs....This is the result of running: ./pre-inst-env guix style --input-simplification=safe and manually undoing changes on a dozen of packages to reduce rebuilds (derivations for emacs, icecat, and libreoffice are unchanged.) Ludovic Courtès
2021-12-13gnu: Simplify package inputs....This commit was obtained by running: ./pre-inst-env guix style without any additional argument. Ludovic Courtès
2021-12-05Merge remote-tracking branch 'origin/master' into core-updates-frozenRicardo Wurmus
2021-12-02gnu: Add trayer-srg....* gnu/packages/wm.scm (trayer-srg): New variable. Co-authored-by: Disseminate Dissent <disseminatedissent@protonmail.com> Signed-off-by: Mathieu Othacehe <othacehe@gnu.org> jgart
2021-11-23Merge branch 'master' into core-updates-frozenLudovic Courtès
2021-11-23gnu: Add qtile....* gnu/packages/wm.scm (qtile): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Stephen Paul Weber
2021-11-22gnu: awesome: Fix build....* gnu/packages/patches/awesome-4.3-fno-common.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/wm.scm (awesome)[source]: Use it. [arguments]{set-paths}: Set HOME and XDG_CACHE_HOME variables. Mathieu Othacehe
2021-11-21gnu: Add devour....* gnu/packages/wm.scm (devour): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr> jgart via Guix-patches via
2021-11-19gnu: wlroots: Remove unneeded elogind dependency....* gnu/packages/wm.scm (wlroots): Remove it. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Josselin Poiret
2021-11-17Merge branch 'master' into core-updates-frozenLudovic Courtès
2021-11-14gnu: waybar: Update to 0.9.8....* gnu/packages/wm.scm (waybar): Update to 0.9.8. [inputs]: Add libxml2. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Greg Hogan
2021-10-31Merge remote-tracking branch 'origin/master' into core-updates-frozenEfraim Flashner
2021-10-31gnu: polybar: Update to 3.5.7....* gnu/packages/wm.scm (polybar): Update to 3.5.7. Tobias Geerinckx-Rice
2021-10-24gnu: Move Common Lisp testing frameworks to lisp-check module....* gnu/packages/lisp-xyz.scm (sbcl-1am, cl-1am, ecl-1am, sbcl-check-it, cl-check-it, ecl-check-it, sbcl-checkl, cl-checkl, ecl-checkl, sbcl-cl-mock, cl-mock, ecl-cl-mock, sbcl-cl-quickcheck, cl-quickcheck, ecl-cl-quickcheck, sbcl-clunit, cl-clunit, ecl-clunit, sbcl-clunit2, cl-clunit2, ecl-clunit2, sbcl-eos, cl-eos, ecl-eos, sbcl-fiasco, cl-fiasco, ecl-fiasco, sbcl-fiveam, cl-fiveam, ecl-fiveam, sbcl-hu.dwim.stefil, cl-hu.dwim.stefil, ecl-hu.dwim.stefil, sbcl-lift, cl-lift, ecl-lift, sbcl-lisp-unit, cl-lisp-unit, ecl-lisp-unit, sbcl-lisp-unit2, cl-lisp-unit2, ecl-lisp-unit2, sbcl-parachute, cl-parachute, ecl-parachute, sbcl-prove, cl-prove, ecl-prove, sbcl-ptester, cl-ptester, ecl-ptester, sbcl-rove, cl-rove, ecl-rove, sbcl-rt, cl-rt, ecl-rt, sbcl-stefil, cl-stefil, ecl-stefil, sbcl-unit-test, cl-unit-test, ecl-unit-test, sbcl-xlunit, cl-xlunit, ecl-xlunit): Move to ... * gnu/packages/lisp-check.scm: ... here. * gnu/packages/web-browsers.scm: Import lisp-check module. * gnu/packages/wm.scm: Import lisp-check module. Guillaume Le Vaillant
2021-10-23gnu: Use 'search-input-file' some more....This patch replaces occurrences of: (string-append (assoc-ref %build-inputs "…") "/…") by: (search-input-file %build-inputs "/…") * doc/guix.texi (Miscellaneous Services): Use 'search-input-file' in R Shiny example. * gnu/packages/admin.scm (screenfetch): Use 'search-input-file'. (ufetch): Likewise. (hosts): Likewise. * gnu/packages/backup.scm (dirvish): Likewise. * gnu/packages/code.scm (colormake): Likewise. * gnu/packages/compression.scm (makeself-safeextract): Likewise. * gnu/packages/debug.scm (scanmem): Likewise. * gnu/packages/education.scm (snap): Likewise. (omnitux): Likewise. * gnu/packages/emacs-xyz.scm (epipe): Likewise. * gnu/packages/games.scm (openttd-opensfx): Likewise. (openttd-openmsx): Likewise. (openrct2-title-sequences): Likewise. (openrct2-objects): Likewise. (mrrescue): Likewise. (0ad-data): Likewise. (xonotic-data): Likewise. (drascula): Likewise. (make-lure-package): Likewise. (make-queen-package): Likewise. (sky): Likewise. * gnu/packages/gnome.scm (network-manager): Likewise. * gnu/packages/gnuzilla.scm (icedove): Likewise. * gnu/packages/guile-xyz.scm (guile-shapefile): Likewise. * gnu/packages/hurd.scm (netdde): Likewise. * gnu/packages/javascript.scm (js-context-menu): Likewise. (js-commander): Likewise. (js-xmldom-sre): Likewise. * gnu/packages/kde-frameworks.scm (krunner): Likewise. * gnu/packages/kodi.scm (kodi-cli): Likewise. * gnu/packages/libreoffice.scm (hunspell-dict-pl): Likewise. * gnu/packages/linux.scm (e2fsck/static): Likewise. * gnu/packages/markup.scm (markdown): Likewise. * gnu/packages/maths.scm (hdf-java): Likewise. * gnu/packages/multiprecision.scm (libtomcrypt): Likewise. * gnu/packages/networking.scm (batctl): Likewise. * gnu/packages/python-xyz.scm (python-pymediainfo): Likewise. * gnu/packages/shells.scm (fish-foreign-env): Likewise. * gnu/packages/tex.scm (texlive-fonts-iwona): Likewise. * gnu/packages/upnp.scm (miniupnpc): Likewise. * gnu/packages/version-control.scm (git-annex-remote-rclone): Likewise. * gnu/packages/virtualization.scm (qemu): Likewise. * gnu/packages/web.scm (icedtea-web): Likewise. * gnu/packages/wm.scm (stumpish): Likewise. Ludovic Courtès