| Commit message (Collapse) | Author | Age |
|\
| |
| |
| |
| |
| |
| |
| | |
Conflicts:
gnu/local.mk
gnu/packages/gdb.scm
gnu/packages/lisp-xyz.scm
gnu/packages/web-browsers.scm
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (samtools): Update to 1.11.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (bcftools): Update to 1.11.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (htslib): Update to 1.11.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (imp): Update to 2.13.0.
|
| |
| |
| |
| |
| |
| |
| |
| |
| |
| | |
For well-behaved build systems, including the "dev" output suffices.
* gnu/packages/bioinformatics.scm (kentutils)[inputs]: Remove MARIADB:LIB.
* gnu/packages/cran.scm (r-rmysql)[inputs]: Likewise.
* gnu/packages/databases.scm (python-mysqlclient, soci)[inputs]: Likewise.
* gnu/packages/qt.scm (qt-4, qtbase): Likewise.
* gnu/packages/ruby.scm (ruby-mysql2)[inputs]: Likewise.
|
|\| |
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (htslib)[arguments]: Enable support for custom URIs.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (r-gqtlbase): Update to 1.20.4.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.32.3.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.16.1.
|
|\| |
|
| |
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (mafft): Update to 7.471.
Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (mafft)[home-page, license]: Use HTTPS URI.
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
| |
| |
| |
| |
| |
| |
| | |
* 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>
|
|\ \
| |/
|/| |
|
| |\ |
|
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/check.scm (check): Update to 0.15.1.
(check-0.14): New public variable.
* gnu/packages/backup.scm (burp)[native-inputs]: Change from CHECK to
CHECK-0.14.
* gnu/packages/bioinformatics.scm (libsbml)[native-inputs]: Likewise.
* gnu/packages/databases.scm (recutils)[native-inputs]: Likewise.
* gnu/packages/electronics.scm (libsigrokdecode)[native-inputs]: Likewise.
* gnu/packages/enlightenment.scm (efl, edi)[native-inputs]: Likewise.
* gnu/packages/gnome.scm (gdm)[inputs]: Likewise.
* gnu/packages/gtk.scm (girara)[native-inputs]: Likewise.
* gnu/packages/messaging.scm (pidgin)[native-inputs]: Likewise.
* gnu/packages/networking.scm (iodine)[native-inputs]: Likewise.
* gnu/packages/pulseaudio.scm (pulseaudio)[native-inputs]: Likewise.
* gnu/packages/sssd.scm (sssd)[native-inputs]: Likewise.
* gnu/packages/web.scm (libwapcaplet)[native-inputs]: Likewise.
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-absfiltergsea): Move from here...
* gnu/packages/cran.scm (r-absfiltergsea): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-diversitree): Move from here...
* gnu/packages/cran.scm (r-diversitree): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-phangorn): Move from here...
* gnu/packages/cran.scm (r-phangorn): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-seurat): Move from here...
* gnu/packages/cran.scm (r-seurat): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-maldiquant): Move from here...
* gnu/packages/cran.scm (r-maldiquant): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-seqminer): Move from here...
* gnu/packages/cran.scm (r-seqminer): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-qtl2): Move from here...
* gnu/packages/cran.scm (r-qtl2): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-qtl): Move from here...
* gnu/packages/cran.scm (r-qtl): ...to here.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
| | |
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-bisquerna): Move to ...
* gnu/packages/cran.scm: ... here.
|
| | |
| | |
| | |
| | |
| | |
| | | |
This reverts commit 1f56ec08af704bdc7aa3e143bf5ce351c5306dea.
This package is not free software.
|
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-bisquerna): New variable.
|
| | |
| | |
| | |
| | | |
* gnu/packages/bioinformatics.scm (r-loomr): New variable.
|
| |/
|/|
| |
| | |
* gnu/packages/bioinformatics.scm (seqmagick): Update to 0.8.0.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (delly): Update to 0.8.3.
[inputs]: Order alphabetically.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (vcflib)[arguments]: Adjust custom
'install phase to add vcflib.pc.
|
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (vcflib)[source]: Add patch. Add
snippet to adjust files for new locations.
[inputs]: Add fastahack, smithwaterman, tabixpp, xz.
[native-inputs]: Add pkg-config. Remove the package-source of fastahack,
fsom, smithwaterman, tabixpp.
[arguments]: Remove make-flags. Add custom phase to add the output lib
directory to the rpath. Adjust custom 'unpack-submodule-sources for the
change in native-inputs. Adjust custom 'install phase to also install
libraries and headers.
* gnu/packages/patches/vcflib-use-shared-libraries.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (fastahack)[arguments]: Adjust custom
'install phase to add fastahack.pc.
|
| |
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (fastahack)[arguments]: Add phase to
build PIE objects. Add custom phase to build dynamic library. Adjust
custom 'install phase to install shared library and headers.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (smithwaterman)[arguments]: Adjust
custom 'install phase to add smithwaterman.pc file.
|
| |
| |
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (smithwaterman)[arguments]: Add custom
phase to build PIE objects. Add custom 'build-dynamic phase to build
dynamic library. Adjust custom 'install phase to install shared library
and headers.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (tabixpp)[arguments]: Adjust custom
'install phase to add tabixpp.pc file.
|
| |
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (tabixpp)[arguments]: Adjust custom
'build phase to build shared library. Adjust custom 'install phase to
install libraries and header.
|
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (r-complexheatmap): Update to 2.4.3.
|
| |
| |
| |
| |
| | |
* gnu/packages/bioinformatics.scm (r-gage): Update to 2.38.3.
[propagated-inputs]: Add r-go-db.
|