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2017-11-08build: Use overlayfs instead of unionfs.Hartmut Goebel
Overlayfs is part of the kernel, while unionfs needs FUSE. This also reduces the size of the initrd by ca. 4.3% (487K). * gnu/build/linux-boot.scm (mount-root-file-system): Remove optional parameter "unionfs"; mount using overlayfs instead of unionfs; new directory layout requied by overlayfs; update documentation. [mark-as-not-killable]: Remove now unused function * gnu/system/linux-initrd.scm (file-system-packages): Remove now unused packages "unionfs-fuse/static" and thus unused related 'if'. (linux-modules): Replace "fuse" by "overlay".
2017-11-08gnu: miso: Use pypi-uri.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (miso)[source]: Use pypi-uri.
2017-11-08gnu: Add r-vcd.Ricardo Wurmus
* gnu/packages/cran.scm (r-vcd): New variable.
2017-11-08gnu: Add r-laeken.Ricardo Wurmus
* gnu/packages/cran.scm (r-laeken): New variable.
2017-11-08doc: Move paragraph about signature verification to the top.Ricardo Wurmus
* doc/contributing.texi (Submitting Patches): Remind contributors to verify cryptographic signatures at the very beginning.
2017-11-08gnu: fastcap: Use texlive-tiny.Ricardo Wurmus
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Replace texlive with texlive-tiny. [arguments]: Fix indentation; set HOME in "make-pdf" phase to avoid font errors with texlive-tiny.
2017-11-08gnu: librecad: Fix build.Ricardo Wurmus
* gnu/packages/engineering.scm (librecad)[arguments]: Add phase "patch-boost-error".
2017-11-08gnu: Add r-performanceanalytics.Ricardo Wurmus
* gnu/packages/cran.scm (r-performanceanalytics): New variable.
2017-11-08gnu: Add r-xts.Ricardo Wurmus
* gnu/packages/cran.scm (r-xts): New variable.
2017-11-08gnu: Remove "open source" from descriptions.Ricardo Wurmus
All software in Guix is Free Software. * gnu/packages/aidc.scm (libdmtx)[description]: Remove "open source" string. * gnu/packages/firmware.scm (seabios)[description]: Likewise. * gnu/packages/libupnp.scm (libupnp)[description]: Likewise. * gnu/packages/maths.scm (cubicle)[description]: Likewise. * gnu/packages/mingw.scm (mingw-w64)[description]: Likewise. * gnu/packages/game-development.scm (openmw)[description]: Likewise. [synopsis]: Remove "Free software".
2017-11-08gnu: pcb: Update to 4.0.2.Ricardo Wurmus
* gnu/packages/engineering.scm (pcb): Update to 4.0.2. [arguments]: Add build phase "fix-check-for-display".
2017-11-08gnu: time: Update license.Efraim Flashner
* gnu/packages/time.scm (time)[license]: Change to gpl3+.
2017-11-08gnu: time: Update to 1.8.Efraim Flashner
* gnu/packages/time.scm (time): Update to 1.8. [arguments]: Remove custom 'configure phase.
2017-11-07gnu: Add glusterfs.Ricardo Wurmus
* gnu/packages/file-systems.scm (glusterfs): New variable.
2017-11-07gnu: r-prabclus: Update description.Ricardo Wurmus
* gnu/packages/statistics.scm (r-prabclus)[description]: Fix grammar errors.
2017-11-07gnu: r-fdrtool: Update description.Ricardo Wurmus
* gnu/packages/statistics.scm (r-fdrtool)[description]: Use "@dfn" syntax.
2017-11-07gnu: Add r-bbmle.Ricardo Wurmus
* gnu/packages/cran.scm (r-bbmle): New variable.
2017-11-07gnu: Add r-rsofia.Ricardo Wurmus
* gnu/packages/cran.scm (r-rsofia): New variable.
2017-11-07gnu: Add r-hitc.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-hitc): New variable.
2017-11-07gnu: Add r-fithic.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-fithic): New variable.
2017-11-07gnu: Add r-sushi.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-sushi): New variable.
2017-11-07gnu: Add r-vioplot.Ricardo Wurmus
* gnu/packages/cran.scm (r-vioplot): New variable.
2017-11-07gnu: Add r-sm.Ricardo Wurmus
* gnu/packages/cran.scm (r-sm): New variable.
2017-11-07gnu: Add r-gwascat.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gwascat): New variable.
2017-11-07gnu: Add r-gviz.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gviz): New variable.
2017-11-07gnu: Add r-gqtlstats.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gqtlstats): New variable.
2017-11-07gnu: Add r-hardyweinberg.Ricardo Wurmus
* gnu/packages/cran.scm (r-hardyweinberg): New variable.
2017-11-07gnu: Add r-mice.Ricardo Wurmus
* gnu/packages/cran.scm (r-mice): New variable.
2017-11-07gnu: Add r-ldblock.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-ldblock): New variable.
2017-11-07gnu: Add r-erma.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-erma): New variable.
2017-11-07gnu: Add r-homo-sapiens.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-homo-sapiens): New variable.
2017-11-07gnu: Add r-org-hs-eg-db.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): New variable.
2017-11-07gnu: Add r-snpstats.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-snpstats): New variable.
2017-11-07gnu: Add r-gqtlbase.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gqtlbase): New variable.
2017-11-07gnu: Add r-gprofiler.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gprofiler): New variable.
2017-11-07gnu: Add r-ggbio.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-ggbio): New variable.
2017-11-07gnu: Add r-biovizbase.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biovizbase): New variable.
2017-11-07gnu: Add r-organismdbi.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-organismdbi): New variable.
2017-11-07gnu: Add r-ensembldb.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-ensembldb): New variable.
2017-11-07gnu: Add r-annotationfilter.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationfilter): New variable.
2017-11-07gnu: Add r-dirichletmultinomial.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): New variable.
2017-11-07gnu: Add r-complexheatmap.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-complexheatmap): New variable.
2017-11-07gnu: Add r-genomicfiles.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicfiles): New variable.
2017-11-07gnu: bdftopcf: Update to 1.1.Marius Bakke
* gnu/packages/xorg.scm (bdftopcf): Update to 1.1. [native-inputs]: Change from LIBXFONT to LIBXFONT2.
2017-11-07gnu: feh: Update to 2.22.2.Marius Bakke
* gnu/packages/image-viewers.scm (feh): Update to 2.22.2.
2017-11-07gnu: gcc-4.7: Resurrect building with gcc-5.4.0.Jan Nieuwenhuizen
* gnu/packages/patches/gcc-4-compile-with-gcc-5.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/gcc.scm (gcc-4.7): Use it.
2017-11-07gnu: Add websockify.Rutger Helling
* gnu/packages/web.scm (websockify): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07gnu: Add python-networkx2.Gábor Boskovits
* gnu/packages/python.scm (python-networkx2, python2-networkx2): New variables. * gnu/local.mk (dist_patch_DATA): Register 'python-networkx2-reproducible-build.patch'. * gnu/packages/patches/python-networkx2-reproducible-build.patch: New file. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07gnu: Add python-pydot.Gábor Boskovits
* gnu/packages/graphviz.scm (python-pydot, python2-pydot): New variables. Modified-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07gnu: mercurial: Update to 4.4.1.Marius Bakke
* gnu/packages/version-control.scm (mercurial): Update to 4.4.1.
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