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Author SHA1 Message Date
Marius Bakke
8ab70bae52
Merge branch 'staging' 2020-06-13 22:52:25 +02:00
Ricardo Wurmus
9bc516bada
gnu: Add r-pcatools. 
* gnu/packages/bioconductor.scm (r-pcatools): New variable.
 2020-06-13 22:35:29 +02:00
Ricardo Wurmus
e8521f0b95
gnu: libnode: Delete unused phase. 
This is a follow-up to commit bb310a1976.

* gnu/packages/node.scm (libnode)[arguments]: Delete phase
"patch-npm-shebang".
 2020-06-13 20:04:51 +02:00
Ekaitz Zarraga
2c74e87079
gnu: Add meshlab. 
* gnu/packages/engineering.scm (meshlab): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-13 19:16:14 +02:00
Ludovic Courtès
ff30860b63
gnu: perf: Set 'CC'. 
* gnu/packages/linux.scm (perf)[arguments]: Add "CC=gcc" to #:make-flags.
This fixes a (harmless?) error message during the 'configure' phase.
 2020-06-13 19:16:14 +02:00
Ludovic Courtès
221a104248
gnu: perf: Restore use of dependencies. 
* gnu/packages/linux.scm (perf)[arguments]: Remove C_INCLUDE_PATH from
 #:make-flags.  It is no longer needed since the switch to C_INCLUDE_PATH
in 2073b55e6b and would prevent
dependencies from being found.
 2020-06-13 19:16:14 +02:00
Danny Milosavljevic
1eec6b0c01
gnu: guile-sqlite3: Update to 0.1.2. 
* gnu/packages/guile.scm (guile-sqlite3): Update to 0.1.2.
 2020-06-13 17:16:03 +02:00
Ricardo Wurmus
2f38e38fb5
Revert "gnu: node: Build shared library." 
This reverts commit f9311eaa7c.
Adding "--shared" replaces the executable with the shared library, breaking
all users of the nodejs executable.
 2020-06-13 17:02:26 +02:00
Ricardo Wurmus
e602e7f271
gnu: r-v8: Use libnode instead of node. 
* gnu/packages/cran.scm (r-v8)[inputs]: Replace node with libnode.
 2020-06-13 17:02:26 +02:00
Ricardo Wurmus
bb310a1976
gnu: Add libnode. 
* gnu/packages/node.scm (libnode): New variable.
 2020-06-13 17:02:26 +02:00
Mathieu Othacehe
4a04d49c2e
image: Remove 'maybe-with-target'. 
* gnu/system/image.scm (maybe-with-target): Remove,
(system-image): adapt accordingly.
 2020-06-13 16:58:57 +02:00
Mathieu Othacehe
478d1270ce
install: final: Add some logging. 
* gnu/installer/final.scm (umount-cow-store): Add some logging.
 2020-06-13 15:21:20 +02:00
Mathieu Othacehe
f292d4719d
image: Add 'target' support. 
* gnu/image.scm (<image>)[target]: New field,
(image-target): new public method.
* gnu/system/image.scm (hurd-disk-image): Set "i586-pc-gnu" as image 'target'
field,
(maybe-with-target): new procedure,
(system-image): honor image 'target' field using the above procedure.
 2020-06-13 15:20:52 +02:00
Jan (janneke) Nieuwenhuizen
7ca533c723
image: Make 'find-image' non-monadic. 
* gnu/system/image.scm (find-image): Make non-monadic.  Add 'target'
parameter.
* gnu/tests/install.scm (run-install): Update caller,
passing (%current-target-system).
* guix/scripts/system.scm (perform-action): Likewise.
 2020-06-13 15:03:55 +02:00
Christopher Baines
3857aba7ab
gnome: gnome-desktop: Add bubblewrap as an input. 
This is expected to be available, oddly as libseccomp is available.  These
changes fix thumbnails for Nautilus.

* gnu/packages/gnome.scm (gnome-desktop)[arguments]: Add 'patch-bubblewrap
phase.
[inputs]: Add bubblewrap.
 2020-06-13 12:02:13 +01:00
Michael Rohleder
e51175f686
gnu: emacs-debbugs: Update to 0.23. 
* gnu/packages/emacs-xyz.scm (emacs-debbugs): Update to 0.23.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2020-06-13 17:19:21 +08:00
Jan (janneke) Nieuwenhuizen
7304cb0a23
services: hurd: Remove deprecated 'hurd-getty-service' wrapper. 
* gnu/services/hurd.scm (hurd-getty-service): Remove.
 2020-06-13 10:04:51 +02:00
Jan (janneke) Nieuwenhuizen
60fdd9e389
system: hurd: Remove 'cross-hurd-image' hack. 
The initial

    guix build -f gnu/system/hurd.scm

hack has been superseded by regular guix system (cross) build.

* gnu/system/hurd.scm (compile-manifest, cross-hurd-image): Remove.
 2020-06-13 09:11:47 +02:00
Jan (janneke) Nieuwenhuizen
edbc067138
system: bare-hurd.tmpl: Add openssh-sans-x client and service. 
* gnu/system/examples/bare-hurd.tmpl (%hurd-os)[packages]: Add openssh-sans-x.
[services]: Add openssh-service.  Add example usage.
 2020-06-13 09:11:47 +02:00
Ricardo Wurmus
9ae4bd0b77
gnu: r-mzr: Update to 2.22.0. 
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.22.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:02 +02:00
Ricardo Wurmus
6b9e3b92c4
gnu: r-biodist: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-biodist): Update to 1.60.0.
 2020-06-13 01:20:02 +02:00
Ricardo Wurmus
6a88291d1a
gnu: r-biocworkflowtools: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-biocworkflowtools): Update to 1.14.0.
 2020-06-13 01:20:02 +02:00
Ricardo Wurmus
723fa00d11
gnu: r-biocset: Update to 1.2.1. 
* gnu/packages/bioconductor.scm (r-biocset): Update to 1.2.1.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:02 +02:00
Ricardo Wurmus
1759a13d6e
gnu: r-biocpkgtools: Update to 1.6.0. 
* gnu/packages/bioconductor.scm (r-biocpkgtools): Update to 1.6.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
132abe5fcc
gnu: r-biocor: Update to 1.12.0. 
* gnu/packages/bioconductor.scm (r-biocor): Update to 1.12.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
1c51821593
gnu: r-bioconcotk: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-bioconcotk): Update to 1.8.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
4091eae2bc
gnu: r-multiassayexperiment: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-multiassayexperiment): Update to 1.14.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
b56a3462ad
gnu: r-experimenthub: Update to 1.14.0. 
* gnu/packages/bioconductor.scm (r-experimenthub): Update to 1.14.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
543c63f2ae
gnu: r-biocgraph: Update to 1.50.0. 
* gnu/packages/bioconductor.scm (r-biocgraph): Update to 1.50.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
8b71b14158
gnu: r-bioccasestudies: Update to 1.50.0. 
* gnu/packages/bioconductor.scm (r-bioccasestudies): Update to 1.50.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
a74a427bd8
gnu: r-ebarrays: Update to 2.52.0. 
* gnu/packages/bioconductor.scm (r-ebarrays): Update to 2.52.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
affb4ab351
gnu: r-reactomepa: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-reactomepa): Update to 1.32.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
29b1702799
gnu: r-graphite: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-graphite): Update to 1.34.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
e09ca033f4
gnu: r-biobroom: Update to 1.20.0. 
* gnu/packages/bioconductor.scm (r-biobroom): Update to 1.20.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
c8cbde9ff6
gnu: r-bioassayr: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-bioassayr): Update to 1.26.0.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
06908a73fc
gnu: r-chemminer: Update to 3.40.0. 
* gnu/packages/bioconductor.scm (r-chemminer): Update to 3.40.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:01 +02:00
Ricardo Wurmus
d0badcc180
gnu: r-bigpint: Update to 1.4.0. 
* gnu/packages/bioconductor.scm (r-bigpint): Update to 1.4.0.
[propagated-inputs]: Add r-delayedarray and r-summarizedexperiment.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
eef9c99cd8
gnu: r-bigmemoryextras: Update to 1.36.0. 
* gnu/packages/bioconductor.scm (r-bigmemoryextras): Update to 1.36.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
f31edb0191
gnu: r-biggr: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-biggr): Update to 1.24.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
3116998610
gnu: r-hyperdraw: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-hyperdraw): Update to 1.40.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
0ff724616b
gnu: r-hypergraph: Update to 1.60.0. 
* gnu/packages/bioconductor.scm (r-hypergraph): Update to 1.60.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
d65bdbb2cb
gnu: r-rsbml: Update to 2.46.0. 
* gnu/packages/bioconductor.scm (r-rsbml): Update to 2.46.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
a54fd40994
gnu: r-bifet: Update to 1.8.0. 
* gnu/packages/bioconductor.scm (r-bifet): Update to 1.8.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
7642517336
gnu: r-bicare: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-bicare): Update to 1.46.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
2415576ecb
gnu: r-bhc: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-bhc): Update to 1.40.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
de91f15a74
gnu: r-bgx: Update to 1.54.0. 
* gnu/packages/bioconductor.scm (r-bgx): Update to 1.54.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
296992be08
gnu: r-bgmix: Update to 1.48.0. 
* gnu/packages/bioconductor.scm (r-bgmix): Update to 1.48.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
a9148d0686
gnu: r-unifiedwmwqpcr: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): Update to 1.24.0.
 2020-06-13 01:20:00 +02:00
Ricardo Wurmus
518050a75b
gnu: r-htqpcr: Update to 1.42.0. 
* gnu/packages/bioconductor.scm (r-htqpcr): Update to 1.42.0.
 2020-06-13 01:19:59 +02:00
Ricardo Wurmus
fbbaf5ae64
gnu: r-variancepartition: Update to 1.18.0. 
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.18.0.
[native-inputs]: Add r-knitr.
 2020-06-13 01:19:59 +02:00