| Age | Commit message (Expand) | Author |
|---|
| 2019-08-08 | gnu: Add fastahack.•••* gnu/packages/bioinformatics.scm (fastahack): New variable.
| Pierre Neidhardt |
| 2019-08-08 | gnu: Add fsom.•••* gnu/packages/bioinformatics.scm (fsom): New variable.
| Pierre Neidhardt |
| 2019-08-08 | gnu: Add multichoose.•••* gnu/packages/bioinformatics.scm (multichoose): New variable.
| Pierre Neidhardt |
| 2019-08-08 | gnu: Add smithwaterman.•••* gnu/packages/bioinformatics.scm (smithwaterman): New variable.
| Pierre Neidhardt |
| 2019-08-08 | gnu: Add tabixpp.•••* gnu/packages/bioinformatics.scm (tabixpp): New variable.
| Pierre Neidhardt |
| 2019-08-07 | gnu: Remove ghc-parsec, ghc-stm, ghc-text, ghc-xhtml.•••These are ghc-8.4-bundled packages, removing to avoid build
conflicts.
* gnu/packages/haskell.scm (ghc-parsec, ghc-stm, ghc-text): Remove.
* gnu/packages/haskell-web.scm (ghc-xhtml): Remove.
* gnu/packages/agda.scm (agda)[inputs]: Remove ghc-stm and ghc-text.
* gnu/packages/bioinformatics.scm (ngless)[inputs]: Remove ghc-parsec and
ghc-text.
* gnu/packages/haskell-apps.scm (darcs)[inputs]: Remove ghc-parsec.
(git-annex)[inputs]: Remove ghc-stm and ghc-text.
(ghc-sdl2)[inputs]: Remove ghc-text.
(ghc-sdl2-image)[inputs]: Remove ghc-text.
* gnu/packages/haskell-check.scm (ghc-tasty-ant-xml)[inputs]: Remove ghc-stm.
(ghc-tasty)[inputs]: Remove ghc-stm.
(ghc-tasty-rerun)[inputs]: Same.
(ghc-quickcheck-instances)[inputs]: Remove ghc-text.
(ghc-hedgehog)[inputs]: Remove ghc-stm.
* gnu/packages/haskell-crypto.scm (ghc-asn1-encoding)[inputs]: Remove
ghc-text.
* gnu/packages/haskell-web.scm (ghc-tagsoup)[inputs]: Remove ghc-text.
(ghc-cookie)[inputs]: Same.
(ghc-http-types)[inputs]: Same.
(ghc-http)[inputs]: Remove ghc-parsec.
(ghc-http-client)[inputs]: Remove ghc-text.
(ghc-http2)[inputs]: Remove ghc-stm.
(ghc-http-conduit)[native-inputs]: Remove ghc-text.
(ghc-wai)[inputs]: Same.
(ghc-wai-extra)[inputs]: Same.
(ghc-warp)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xss-sanitize)[native-inputs]: Remove ghc-text.
(ghc-css-text)[inputs]: Same.
(ghc-mime-types)[inputs]: Same.
(ghc-blaze-html)[inputs]: Same.
(ghc-aeson)[inputs]: Same.
(ghc-aeson-pretty)[inputs]: Same.
(ghc-aeson-qq)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-multipart)[inputs]: Remove ghc-parsec.
(ghc-uri-encode)[inputs]: Remove ghc-text.
(ghc-path-pieces)[inputs]: Same.
(ghc-yesod-core)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-yesod-persistent)[inputs]: Remove ghc-text.
(ghc-yesod-form)[inputs]: Same.
(ghc-yesod)[inputs]: Same.
(ghc-hxt-regex-xmlschema)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-hxt)[inputs]: Remove ghc-parsec.
* gnu/packages/haskell.scm (ghc-convertible)[inputs]: Remove ghc-text.
(ghc-double-conversion)[inputs]: Same.
(ghc-tree-diff)[inputs]: Remove ghc-parsec and ghc-text.
[native-inputs]: Remove ghc-parsec.
(ghc-cgi)[inputs]: Remove ghc-parsec.
(hlint)[inputs]: Remove ghc-text.
(ghc-openglraw)[inputs]: Remove ghc-text.
(ghc-opengl)[inputs]: Same.
(ghc-streaming-commons)[inputs]: Remove ghc-stm and ghc-text.
(ghc-hackage-security)[inputs]: Remove ghc-parsec.
(cabal-install)[inputs]: Remove ghc-stm.
(ghc-parsec-numbers)[inputs]: Remove ghc-parsec.
(ghc-safesemaphore)[inputs]: Remove ghc-stm.
(ghc-text-binary)[inputs]: Remove ghc-text.
(ghc-hashable)[inputs]: Remove ghc-text.
(ghc-transformers-base)[inputs]: Remove ghc-stm.
(ghc-indents)[inputs]: Remove ghc-parsec.
(ghc-regex-tdfa-rc)[inputs]: Same.
(ghc-regex-tdfa-text)[inputs]: Same.
(ghc-regex)[inputs]: Remove ghc-text.
(ghc-parsers)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-attoparsec)[inputs]: Remove ghc-text.
(ghc-attoparsec-bootstrap)[inputs]: Same.
(ghc-zip-archive)[inputs]: Same.
(ghc-polyparse)[inputs]: Same.
(ghc-reducers)[inputs]: Same.
(ghc-xml)[inputs]: Same.
(ghc-feed)[inputs]: Same.
(ghc-exceptions)[inputs]: Remove ghc-stm.
(ghc-case-insensitive)[inputs]: Remove ghc-text.
(ghc-megaparsec)[inputs]: Same.
(ghc-network-uri)[inputs]: Remove ghc-parsec.
(ghc-monad-control)[inputs]: Remove ghc-stm.
(ghc-blaze-builder)[inputs]: Remove ghc-text.
(ghc-blaze-markup)[inputs]: Same.
(ghc-async)[inputs]: Remove ghc-stm.
(ghc-invariant)[inputs]: Same.
(ghc-statevar)[inputs]: Same.
(ghc-lens)[inputs]: Remove ghc-text.
(ghc-cheapskate)[inputs]: Same.
(ghc-semigroups)[inputs]: Same.
(ghc-semigroups-bootstrap)[inputs]: Same.
(ghc-fast-logger)[inputs]: Same.
(ghc-scientific)[inputs]: Same.
(ghc-scientific-bootstrap)[inputs]: Same.
(ghc-texmath)[inputs]: Remove ghc-parsec.
(ghc-highlighting-kate)[inputs]: Same.
(ghc-cmark)[inputs]: Remove ghc-text.
(ghc-cmark-gfm)[inputs]: Same.
(ghc-th-lift-instances)[inputs]: Same.
(ghc-yaml)[inputs]: Same.
(ghc-hslua)[inputs]: Same.
(ghc-hslua-module-text)[inputs]: Same.
(ghc-skylighting-core)[inputs]: Same.
(ghc-doctemplates)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-pandoc)[inputs]: Same.
(ghc-typed-process)[inputs]: Remove ghc-stm.
(ghc-conduit-extra)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xml-types)[inputs]: Remove ghc-text.
(ghc-xml-conduit)[inputs]: Same.
(ghc-pandoc-citeproc)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-regex-tdfa)[inputs]: Remove ghc-parsec.
(ghc-wl-pprint-text)[inputs]: Remove ghc-text.
(ghc-graphviz)[inputs]: Same.
(ghc-system-filepath-bootstrap)[inputs]: Same.
(ghc-system-fileio-bootstrap)[inputs]: Same.
(ghc-shelly)[inputs]: Same.
(ghc-chell)[inputs]: Same.
(ghc-system-filepath)[inputs]: Same.
(ghc-system-fileio)[inputs]: Same.
(ghc-fsnotify)[inputs]: Same.
(ghc-json)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-esqueleto)[inputs]: Remove ghc-text.
(shellcheck)[inputs]: Remove ghc-parsec.
(ghc-errors)[inputs]: Remove ghc-text.
(ghc-chunked-data)[inputs]: Same.
(ghc-uuid-types)[inputs]: Same.
(ghc-uuid)[inputs]: Same.
(ghc-rebase)[inputs]: Remove ghc-stm and ghc-text.
(ghc-foldl)[inputs]: Remove ghc-text.
(ghc-mono-traversable)[inputs]: Same.
(ghc-conduit-combinators)[inputs]: Same.
(ghc-aws)[inputs]: Same.
(ghc-stm-chans)[inputs]: Remove ghc-stm.
(ghc-monad-logger)[inputs]: Remove ghc-text and ghc-stm.
(ghc-shakespeare)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-resource-pool)[inputs]: Remove ghc-stm.
(ghc-attoparsec-iso8601)[inputs]: Remove ghc-text.
(ghc-http-api-data)[inputs]: Same.
(ghc-persistent)[inputs]: Same.
(ghc-aeson-compat)[inputs]: Same.
(ghc-persistent-template)[inputs]: Same.
(ghc-unliftio)[inputs]: Remove ghc-stm.
(ghc-persistent-sqlite)[native-inputs]: Remove ghc-text.
(ghc-bytes)[inputs]: Same.
(ghc-missingh)[inputs]: Remove ghc-parsec.
(ghc-rio)[inputs]: Remove ghc-text.
(ghc-cairo)[inputs]: Same.
(ghc-atomic-write)[inputs]: Remove ghc-text.
[native-inputs]: Same.
(ghc-stm-conduit)[inputs]: Remove ghc-stm.
(ghc-conduit-algorithms)[inputs]: Same.
(ghc-interpolate)[native-inputs]: Remove ghc-text.
(ghc-hpack)[inputs]: Same.
(ghc-inline-c)[inputs]: Remove ghc-parsec.
(ghc-configurator)[inputs]: Remove ghc-text.
(ghc-c2hs)[native-inputs]: Same.
(ghc-libmpd)[inputs]: Same.
(ghc-concurrent-output)[inputs]: Remove ghc-stm.
* gnu/packages/idris.scm (idris)[inputs]: Remove ghc-text.
* gnu/packages/wm.scm (xmobar)[inputs]: Remove ghc-parsec and ghc-stm.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| Robert Vollmert |
| 2019-08-06 | gnu: r-msnid: Update to 1.18.1.•••* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.18.1.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-rcas: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.10.1.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-genomicfeatures: Update to 1.36.4.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.4.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-rtracklayer: Update to 1.44.2.•••* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.2.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-summarizedexperiment: Update to 1.14.1.•••* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.14.1.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-biomart: Update to 2.40.3.•••* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.3.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-limma: Update to 3.40.6.•••* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.6.
| Ricardo Wurmus |
| 2019-08-06 | gnu: r-edger: Update to 3.26.6.•••* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.6.
| Ricardo Wurmus |
| 2019-08-05 | gnu: khmer: Make gzip timestamps writable.•••* gnu/packages/bioinformatics.scm (khmer)[arguments]: Add custom phase
to make gzip timestamps writable.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
| Brian Leung |
| 2019-07-31 | gnu: prank: Update to 170427.•••* gnu/packages/bioinformatics.scm (prank): Update to 170427.
| Marius Bakke |
| 2019-07-31 | Merge branch 'master' into core-updates | Marius Bakke |
| 2019-07-25 | gnu: Explicitly refer to 'guile-json-1' when needed.•••* gnu/packages/bioinformatics.scm (rcas-web)[inputs]: Change
'guile-json' to 'guile-json-1'.
* gnu/packages/ci.scm (cuirass)[inputs]: Likewise.
* gnu/packages/guile-xyz.scm (artanis)[inputs]: Likewise.
* gnu/packages/guile-xyz.scm (jupyter-guile-kernel)[inputs]: Likewise.
* gnu/packages/guile-xyz.scm (guile-mastodon)[inputs]: Likewise.
* gnu/packages/mail.scm (mumi)[inputs]: Likewise.
* gnu/packages/package-management.scm (guix)[inputs]: Likewise.
* gnu/packages/package-management.scm (guix-daemon)[inputs]: Likewise.
* gnu/packages/web.scm (hpcguix-web)[inputs]: Likewise.
| Ludovic Courtès |
| 2019-07-22 | Merge branch 'master' into core-updates | Marius Bakke |
| 2019-07-22 | gnu: htslib: Propagate zlib.•••Reported by Vedran Franke <Vedran.Franke@mdc-berlin.de>.
* gnu/packages/bioinformatics.scm (htslib)[inputs]: Move zlib from here...
[propagated-inputs]: ...to here.
| Ricardo Wurmus |
| 2019-07-18 | gnu: bpp: Use the default GCC.•••* gnu/packages/bioinformatics.scm (bpp-core, bpp-phyl, bpp-popgen, bpp-seq,
bppsuite)[inputs]: Remove GCC-5.
| Marius Bakke |
| 2019-07-17 | Merge branch 'master' into core-updates | Ludovic Courtès |
| 2019-07-17 | gnu: nanopolish: Fix build with GCC 7.•••* gnu/packages/bioinformatics.scm (nanopolish)[arguments]: Preserve the
existing CPATH variable, if any.
| Marius Bakke |
| 2019-07-15 | gnu: salmon: Fix build with GCC 7.•••* gnu/packages/bioinformatics.scm (salmon)[arguments]: Do not read from
CPLUS_INCLUDE_PATH, and add headers to CPATH only.
| Marius Bakke |
| 2019-07-15 | gnu: Add python-ont-fast5-api.•••* gnu/packages/bioinformatics.scm (python-ont-fast5-api): New variable.
| Ricardo Wurmus |
| 2019-07-14 | gnu: Adjust uses of C{,PLUS}_INCLUDE_PATH for GCC 7.•••These variables are no longer set in the build environment by default. GCC
still respects these search paths and treats them as "system headers" so we
can continue to use them, just not expect them to be available.
* gnu/packages/mpi.scm (openmpi)[arguments]: Do not attempt to read from
C_INCLUDE_PATH, nor CPLUS_INCLUDE_PATH.
* gnu/packages/games.scm (kiki)[arguments]: Likewise.
* gnu/packages/networking.scm (hcxtools)[arguments]: Likewise.
* gnu/packages/synergy.scm (synergy)[arguments]: Likewise.
* gnu/packages/bioinformatics.scm (gemma, sailfish)[arguments]: Likewise.
* gnu/packages/maths.scm (dune-alugrid)[arguments]: Likewise.
| Marius Bakke |
| 2019-07-13 | gnu: pigx-rnaseq: Update to 0.0.10.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.10.
| Ricardo Wurmus |
| 2019-07-12 | Merge branch 'master' into core-updates••• Conflicts:
gnu/local.mk
gnu/packages/python-xyz.scm
gnu/packages/xml.scm
guix/gexp.scm
po/guix/POTFILES.in
| Marius Bakke |
| 2019-07-09 | gnu: r-biocinstaller: Remove entirely.•••This follows up on commit 0971f8bd884b6e92b77d9e12030cd58279699183,
which led to ‘r-biocmanager: unbound variable’ errors. See
<https://lists.gnu.org/archive/html/guix-devel/2019-07/msg00120.html>.
* gnu/packages/bioinformatics.scm (r-biocinstaller): Remove variable.
| Tobias Geerinckx-Rice |
| 2019-07-08 | gnu: Remove r-biocinstaller.•••It requires R < 3.6 and is no longer supported.
* gnu/packages/bioinformatics.scm (r-biocinstaller): Define as
deprecated in favour of r-biocmanager.
| Tobias Geerinckx-Rice |
| 2019-07-08 | gnu: r-xbioc: Update to 0.1.16-1.6ff0670.•••This is needed to deprecate r-biocinstaller, which is no longer
distributed.
* gnu/packages/bioinformatics.scm (r-xbioc): Update to 0.1.16-1.6ff0670.
[propagated-inputs]: Replace deprecated r-biocinstaller with
r-biocmanager.
| Tobias Geerinckx-Rice |
| 2019-07-05 | gnu: nanopolish: Update to 0.11.1-1.6331dc4.•••* gnu/packages/bioinformatics.scm (nanopolish): Update to 0.11.1-1.6331dc4.
| Ricardo Wurmus |
| 2019-07-04 | gnu: Remove ghc-parsec, ghc-stm, ghc-text, ghc-xhtml.•••These are ghc-8.4-bundled packages, removing to avoid build
conflicts.
* gnu/packages/haskell.scm (ghc-parsec, ghc-stm, ghc-text): Remove.
* gnu/packages/haskell-web.scm (ghc-xhtml): Remove.
* gnu/packages/agda.scm (agda)[inputs]: Remove ghc-stm and ghc-text.
* gnu/packages/bioinformatics.scm (ngless)[inputs]: Remove ghc-parsec and
ghc-text.
* gnu/packages/haskell-apps.scm (darcs)[inputs]: Remove ghc-parsec.
(git-annex)[inputs]: Remove ghc-stm and ghc-text.
(ghc-sdl2)[inputs]: Remove ghc-text.
(ghc-sdl2-image)[inputs]: Remove ghc-text.
* gnu/packages/haskell-check.scm (ghc-tasty-ant-xml)[inputs]: Remove ghc-stm.
(ghc-tasty)[inputs]: Remove ghc-stm.
(ghc-tasty-rerun)[inputs]: Same.
(ghc-quickcheck-instances)[inputs]: Remove ghc-text.
(ghc-hedgehog)[inputs]: Remove ghc-stm.
* gnu/packages/haskell-crypto.scm (ghc-asn1-encoding)[inputs]: Remove
ghc-text.
* gnu/packages/haskell-web.scm (ghc-tagsoup)[inputs]: Remove ghc-text.
(ghc-cookie)[inputs]: Same.
(ghc-http-types)[inputs]: Same.
(ghc-http)[inputs]: Remove ghc-parsec.
(ghc-http-client)[inputs]: Remove ghc-text.
(ghc-http2)[inputs]: Remove ghc-stm.
(ghc-http-conduit)[native-inputs]: Remove ghc-text.
(ghc-wai)[inputs]: Same.
(ghc-wai-extra)[inputs]: Same.
(ghc-warp)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xss-sanitize)[native-inputs]: Remove ghc-text.
(ghc-css-text)[inputs]: Same.
(ghc-mime-types)[inputs]: Same.
(ghc-blaze-html)[inputs]: Same.
(ghc-aeson)[inputs]: Same.
(ghc-aeson-pretty)[inputs]: Same.
(ghc-aeson-qq)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-multipart)[inputs]: Remove ghc-parsec.
(ghc-uri-encode)[inputs]: Remove ghc-text.
(ghc-path-pieces)[inputs]: Same.
(ghc-yesod-core)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-yesod-persistent)[inputs]: Remove ghc-text.
(ghc-yesod-form)[inputs]: Same.
(ghc-yesod)[inputs]: Same.
(ghc-hxt-regex-xmlschema)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-hxt)[inputs]: Remove ghc-parsec.
* gnu/packages/haskell.scm (ghc-convertible)[inputs]: Remove ghc-text.
(ghc-double-conversion)[inputs]: Same.
(ghc-tree-diff)[inputs]: Remove ghc-parsec and ghc-text.
[native-inputs]: Remove ghc-parsec.
(ghc-cgi)[inputs]: Remove ghc-parsec.
(hlint)[inputs]: Remove ghc-text.
(ghc-openglraw)[inputs]: Remove ghc-text.
(ghc-opengl)[inputs]: Same.
(ghc-streaming-commons)[inputs]: Remove ghc-stm and ghc-text.
(ghc-hackage-security)[inputs]: Remove ghc-parsec.
(cabal-install)[inputs]: Remove ghc-stm.
(ghc-parsec-numbers)[inputs]: Remove ghc-parsec.
(ghc-safesemaphore)[inputs]: Remove ghc-stm.
(ghc-text-binary)[inputs]: Remove ghc-text.
(ghc-hashable)[inputs]: Remove ghc-text.
(ghc-transformers-base)[inputs]: Remove ghc-stm.
(ghc-indents)[inputs]: Remove ghc-parsec.
(ghc-regex-tdfa-rc)[inputs]: Same.
(ghc-regex-tdfa-text)[inputs]: Same.
(ghc-regex)[inputs]: Remove ghc-text.
(ghc-parsers)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-attoparsec)[inputs]: Remove ghc-text.
(ghc-attoparsec-bootstrap)[inputs]: Same.
(ghc-zip-archive)[inputs]: Same.
(ghc-polyparse)[inputs]: Same.
(ghc-reducers)[inputs]: Same.
(ghc-xml)[inputs]: Same.
(ghc-feed)[inputs]: Same.
(ghc-exceptions)[inputs]: Remove ghc-stm.
(ghc-case-insensitive)[inputs]: Remove ghc-text.
(ghc-megaparsec)[inputs]: Same.
(ghc-network-uri)[inputs]: Remove ghc-parsec.
(ghc-monad-control)[inputs]: Remove ghc-stm.
(ghc-blaze-builder)[inputs]: Remove ghc-text.
(ghc-blaze-markup)[inputs]: Same.
(ghc-async)[inputs]: Remove ghc-stm.
(ghc-invariant)[inputs]: Same.
(ghc-statevar)[inputs]: Same.
(ghc-lens)[inputs]: Remove ghc-text.
(ghc-cheapskate)[inputs]: Same.
(ghc-semigroups)[inputs]: Same.
(ghc-semigroups-bootstrap)[inputs]: Same.
(ghc-fast-logger)[inputs]: Same.
(ghc-scientific)[inputs]: Same.
(ghc-scientific-bootstrap)[inputs]: Same.
(ghc-texmath)[inputs]: Remove ghc-parsec.
(ghc-highlighting-kate)[inputs]: Same.
(ghc-cmark)[inputs]: Remove ghc-text.
(ghc-cmark-gfm)[inputs]: Same.
(ghc-th-lift-instances)[inputs]: Same.
(ghc-yaml)[inputs]: Same.
(ghc-hslua)[inputs]: Same.
(ghc-hslua-module-text)[inputs]: Same.
(ghc-skylighting-core)[inputs]: Same.
(ghc-doctemplates)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-pandoc)[inputs]: Same.
(ghc-typed-process)[inputs]: Remove ghc-stm.
(ghc-conduit-extra)[inputs]: Remove ghc-stm and ghc-text.
(ghc-xml-types)[inputs]: Remove ghc-text.
(ghc-xml-conduit)[inputs]: Same.
(ghc-pandoc-citeproc)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-regex-tdfa)[inputs]: Remove ghc-parsec.
(ghc-wl-pprint-text)[inputs]: Remove ghc-text.
(ghc-graphviz)[inputs]: Same.
(ghc-system-filepath-bootstrap)[inputs]: Same.
(ghc-system-fileio-bootstrap)[inputs]: Same.
(ghc-shelly)[inputs]: Same.
(ghc-chell)[inputs]: Same.
(ghc-system-filepath)[inputs]: Same.
(ghc-system-fileio)[inputs]: Same.
(ghc-fsnotify)[inputs]: Same.
(ghc-json)[inputs]: Remove ghc-text and ghc-parsec.
(ghc-esqueleto)[inputs]: Remove ghc-text.
(shellcheck)[inputs]: Remove ghc-parsec.
(ghc-errors)[inputs]: Remove ghc-text.
(ghc-chunked-data)[inputs]: Same.
(ghc-uuid-types)[inputs]: Same.
(ghc-uuid)[inputs]: Same.
(ghc-rebase)[inputs]: Remove ghc-stm and ghc-text.
(ghc-foldl)[inputs]: Remove ghc-text.
(ghc-mono-traversable)[inputs]: Same.
(ghc-conduit-combinators)[inputs]: Same.
(ghc-aws)[inputs]: Same.
(ghc-stm-chans)[inputs]: Remove ghc-stm.
(ghc-monad-logger)[inputs]: Remove ghc-text and ghc-stm.
(ghc-shakespeare)[inputs]: Remove ghc-parsec and ghc-text.
(ghc-resource-pool)[inputs]: Remove ghc-stm.
(ghc-attoparsec-iso8601)[inputs]: Remove ghc-text.
(ghc-http-api-data)[inputs]: Same.
(ghc-persistent)[inputs]: Same.
(ghc-aeson-compat)[inputs]: Same.
(ghc-persistent-template)[inputs]: Same.
(ghc-unliftio)[inputs]: Remove ghc-stm.
(ghc-persistent-sqlite)[native-inputs]: Remove ghc-text.
(ghc-bytes)[inputs]: Same.
(ghc-missingh)[inputs]: Remove ghc-parsec.
(ghc-rio)[inputs]: Remove ghc-text.
(ghc-cairo)[inputs]: Same.
(ghc-atomic-write)[inputs]: Remove ghc-text.
[native-inputs]: Same.
(ghc-stm-conduit)[inputs]: Remove ghc-stm.
(ghc-conduit-algorithms)[inputs]: Same.
(ghc-interpolate)[native-inputs]: Remove ghc-text.
(ghc-hpack)[inputs]: Same.
(ghc-inline-c)[inputs]: Remove ghc-parsec.
(ghc-configurator)[inputs]: Remove ghc-text.
(ghc-c2hs)[native-inputs]: Same.
(ghc-libmpd)[inputs]: Same.
(ghc-concurrent-output)[inputs]: Remove ghc-stm.
* gnu/packages/idris.scm (idris)[inputs]: Remove ghc-text.
* gnu/packages/wm.scm (xmobar)[inputs]: Remove ghc-parsec and ghc-stm.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| Robert Vollmert |
| 2019-07-04 | gnu: pigx-rnaseq: Update to 0.0.8.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.8.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-phangorn: Update to 2.5.5.•••* gnu/packages/bioinformatics.scm (r-phangorn): Update to 2.5.5.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-tximport: Update to 1.12.3.•••* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.3.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-genomicfeatures: Update to 1.36.3.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.3.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-genomicalignments: Update to 1.20.1.•••* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.20.1.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-biomart: Update to 2.40.1.•••* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.1.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-edger: Update to 3.26.5.•••* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.5.
| Ricardo Wurmus |
| 2019-06-29 | gnu: r-systempiper: Update to 1.18.2.•••* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.18.2.
| Ricardo Wurmus |
| 2019-06-27 | gnu: pigx-scrnaseq: Update to 0.0.8.•••* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 0.0.8.
| Ricardo Wurmus |
| 2019-06-21 | gnu: khmer: Update to 3.0.0a3.•••* gnu/packages/bioinformatics.scm (khmer): Update to 3.0.0a3.
[source]: Remove patch; remove seqan in snippet.
[inputs]: Add seqan-1.
* gnu/packages/patches/khmer-use-libraries.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
| Ricardo Wurmus |
| 2019-06-20 | gnu: pigx-rnaseq: Update to 0.0.7.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.7.
[inputs]: Add coreutils and sed.
| Ricardo Wurmus |
| 2019-06-20 | gnu: ngs-sdk: Update to 2.9.6.•••* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.6.
| Ricardo Wurmus |
| 2019-06-20 | gnu: sra-tools: Update to 2.9.6.•••* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.6.
| Ricardo Wurmus |
| 2019-06-20 | gnu: ncbi-vdb: Update to 2.9.6.•••* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.6.
[arguments]: Pass HAVE_HDF5 make flag; add build phase "patch-krypto-flags".
| Ricardo Wurmus |
| 2019-06-17 | gnu: Add tbsp.•••* gnu/packages/bioinformatics.scm (tbsp): New variable.
| Ricardo Wurmus |
| 2019-06-17 | gnu: r-seurat: Update to 3.0.2.•••* gnu/packages/bioinformatics.scm (r-seurat): Update to 3.0.2.
| Ricardo Wurmus |
| 2019-06-17 | gnu: r-tximport: Update to 1.12.1.•••* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.1.
| Ricardo Wurmus |
