e5f52b692a
gnu: r-biocviews: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.48.0.
2018-06-02 13:39:07 +02:00
97af51ef40
gnu: r-biocinstaller: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-biocinstaller): Update to 1.30.0.
2018-06-02 13:39:07 +02:00
e5907a44e1
gnu: r-biocgenerics: Update to 0.26.0.
...
* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.26.0.
2018-06-02 13:39:07 +02:00
9370b8ee9f
gnu: r-grohmm: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.14.0.
2018-06-02 13:39:07 +02:00
712fe39680
gnu: r-systempiper: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.14.0.
2018-06-02 13:39:07 +02:00
eabe78faca
gnu: r-shortread: Update to 1.38.0.
...
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.38.0.
2018-06-02 13:39:07 +02:00
9da8e275ca
gnu: r-gostats: Update to 2.46.0.
...
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.46.0.
2018-06-02 13:39:07 +02:00
d8410d6610
gnu: r-category: Update to 2.46.0.
...
* gnu/packages/bioinformatics.scm (r-category): Update to 2.46.0.
2018-06-02 13:39:07 +02:00
f1094f50a7
gnu: r-gseabase: Update to 1.42.0.
...
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.42.0.
2018-06-02 13:39:07 +02:00
9177ac2295
gnu: r-rbgl: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.56.0.
2018-06-02 13:39:07 +02:00
5516db9e70
gnu: r-annotationforge: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.22.0.
2018-06-02 13:39:07 +02:00
16da69b5e6
gnu: r-dexseq: Update to 1.26.0.
...
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.26.0.
2018-06-02 13:39:07 +02:00
51c1f96ebc
gnu: r-deseq2: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.20.0.
2018-06-02 13:39:07 +02:00
41657b15f4
gnu: r-genefilter: Update to 1.62.0.
...
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.62.0.
2018-06-02 13:39:06 +02:00
4d70c8c486
gnu: r-geneplotter: Update to 1.58.0.
...
* gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.58.0.
2018-06-02 13:39:06 +02:00
14e9235f0c
gnu: r-copynumber: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-copynumber): Update to 1.20.0.
2018-06-02 13:39:06 +02:00
02be818044
gnu: r-annotate: Update to 1.58.0.
...
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.58.0.
2018-06-02 13:39:06 +02:00
81b0181b6f
gnu: r-qdnaseq: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.16.0.
[propagated-inputs]: Add r-biocparallel.
2018-06-02 13:39:06 +02:00
5c0df206cf
gnu: r-cghcall: Update to 2.42.0.
...
* gnu/packages/bioconductor.scm (r-cghcall): Update to 2.42.0.
2018-06-02 13:39:06 +02:00
205df4a4cb
gnu: r-cghbase: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-cghbase): Update to 1.40.0.
2018-06-02 13:39:06 +02:00
6748708883
gnu: r-marray: Update to 1.58.0.
...
* gnu/packages/bioconductor.scm (r-marray): Update to 1.58.0.
[propagated-inputs]: Remove r-biobase.
2018-06-02 13:39:06 +02:00
f794e85daa
gnu: r-chippeakanno: Update to 3.14.0.
...
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.0.
[propagated-inputs]: Add r-biostrings, r-delayedarray, r-genomicranges,
r-iranges, and r-s4vectors.
2018-06-02 13:39:06 +02:00
43734b4727
gnu: r-ripseeker: Update to 1.20.0.
...
* gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.20.0.
2018-06-02 13:39:06 +02:00
45bbccf4e7
gnu: r-diffbind: Update to 2.8.0.
...
* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.8.0.
[propagated-inputs]: Add r-genomicranges, r-ggplot2, and
r-summarizedexperiment.
2018-06-02 13:39:06 +02:00
72427c721d
gnu: r-regioner: Update to 1.12.0.
...
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.12.0.
[propagated-inputs]: Add r-s4vectors.
2018-06-02 13:39:06 +02:00
2f5b3d8e90
gnu: r-hpar: Update to 1.22.2.
...
* gnu/packages/bioconductor.scm (r-hpar): Update to 1.22.2.
2018-06-02 13:39:06 +02:00
d22546cf80
gnu: r-minimal: Update to 3.5.0.
...
* gnu/packages/statistics.scm (r-with-tests): New variable derived from
r-minimal; update to 3.5.0.
[arguments]: Build recommended packages.
(r-minimal): Inherit from r-with-tests.
[arguments]: Disable recommended packages and tests.
2018-06-02 13:39:06 +02:00
d5452aa201
gnu: emacs-elfeed: Update to 3.0.0.
...
* gnu/packages/emacs.scm (emacs-elfeed): Update to 3.0.0.
2018-06-02 13:05:08 +02:00
a13c1bf4ca
Merge branch 'master' into core-updates
2018-06-01 23:41:40 +02:00
1a3e3162ac
gnu: icecat: Add more fixes from upstream esr52.
...
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from
the upstream mozilla-esr52 repository.
2018-06-01 12:51:43 -04:00
65a9f6b6cf
gnu: qtbase: Fix build on older kernels.
...
* gnu/packages/qt.scm (qtbase)[arguments]: Add configure flags
"-no-feature-getentropy" and "-no-feature-renameat2".
2018-06-01 17:33:25 +02:00
9f160a0d3c
vm: Use 'with-extensions'.
...
* gnu/system/vm.scm (system-docker-image)[build]: Use
'with-extensions'. Remove 'add-to-load-path' calls.
2018-06-01 15:21:28 +02:00
33d8a87104
bootloader: grub: Use 'with-extensions'.
...
* gnu/bootloader/grub.scm (svg->png): Use 'with-extensions'. Remove
'add-to-load-path' calls.
* gnu/build/svg.scm: Use (rsvg) and (cairo) the normal way. Remove
'module-autoload!' calls.
2018-06-01 15:21:28 +02:00
31a5d694a3
bootloader: grub: Simplify 'svg->png'.
...
* gnu/bootloader/grub.scm (svg->png): Remove now unneeded
#:guile-for-build argument.
2018-06-01 15:21:28 +02:00
ff913cf514
tests: ssh: Use 'with-extensions'.
...
* gnu/tests/ssh.scm (run-ssh-test)[test]: Wrap body in
'with-extensions'. Remove %load-path manipulation code.
2018-06-01 15:21:28 +02:00
514026d7de
gnu: rust: Add support for building 32-bit packages on 64-bit hosts.
...
* gnu/packages/rust.scm (rust-bootstrap, rust-1.23): Use
nix-system->gnu-triplet to determine the system type.
(rust-1.19): Use readelf instead of nm in the atomic-lock-free test.
(rust-1.23): Disable the cargo_test_env test. Disable parallel execution of
tests.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:27 +02:00
a078a6ec3b
gnu: Add git-annex.
...
* gnu/packages/version-control.scm (git-annex): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:27 +02:00
4e5d9bf20e
gnu: Add ghc-disk-free-space.
...
* gnu/packages/haskell.scm (ghc-disk-free-space): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:27 +02:00
1ea3971992
gnu: ghc-psqueues: Allow building with newer versions of QuickCheck.
...
* gnu/packages/haskell.scm (ghc-psqueues)[arguments]: Add configure
flag to allow newer versions of QuickCheck.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:27 +02:00
6950a45073
gnu: Add ghc-safesemaphore.
...
* gnu/packages/haskell.scm (ghc-safesemaphore): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:27 +02:00
92c2097bc2
gnu: Add ghc-esqueleto.
...
* gnu/packages/haskell.scm (ghc-esqueleto): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:26 +02:00
a39e6faee9
gnu: Add ghc-ifelse.
...
* gnu/packages/haskell.scm (ghc-ifelse): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:26 +02:00
e3aae496f9
gnu: Add ghc-feed.
...
* gnu/packages/haskell.scm (ghc-feed): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:26 +02:00
4c798726b4
gnu: Add ghc-bloomfilter.
...
* gnu/package/haskell.scm (ghc-bloomfilter): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:26 +02:00
93b83eb31e
services: Add hpcguix-web.
...
* gnu/service/web.scm (<hpcguix-web-configuration>): New record-type.
(%hpcguix-web-accounts): New variable.
(%hpcguix-web-activation,hpcguix-web-shepherd-service,
hpcguix-web-service-type): New procedures.
* gnu/tests/web.scm (run-hpcguix-web-server-test): New procedure.
(%hpcguix-web-specs, %hpcguix-web-os, %test-hpcguix-web): New variable.
* doc/guix.texi (Web Services): Add 'hpcguix-web'.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01 13:50:26 +02:00
d6a4dfec90
gnu: Add hpcguix-web.
...
* gnu/package/web.scm (hpcguix-web): New variable.
Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
2018-06-01 13:50:26 +02:00
7a4e2eaab3
marionette: Add 'wait-for-tcp-port'.
...
* gnu/build/marionette.scm (wait-for-tcp-port): New procedure.
* gnu/tests/dict.scm (run-dicod-test)["connect inside"]: Use it instead
of the inline loop.
2018-06-01 13:50:26 +02:00
5ede50b850
gnu: emacs-w3m: Update and allow builds with Emacs 26.
...
* gnu/packages/emacs.scm (emacs-w3m)[source]: Grab the source from
github.com.
[native-inputs]: Add TEXINFO.
[arguments]: Add 'support-emacs!' phase. In 'patch-exec-paths' phase,
make w3m.el and w3m-image.el writable. Remove substitution for
'w3m-image-viewer', which no longer exists.
2018-06-01 13:50:26 +02:00
8674abb1dd
gnu: sddm: Fix CMake build.
...
* gnu/packages/display-managers.scm (sddm): Fix CMake build.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/patches/sddm-fix-build-with-qt-5.11-1024.patch: New file.
Signed-off-by: Rutger Helling <rhelling@mykolab.com>
2018-06-01 12:17:00 +02:00
e90322d201
gnu: prosody: Update to 0.10.2 [fixes CVE-2018-10847].
...
* gnu/packages/messaging.scm (prosody): Update to 0.10.2.
2018-05-31 20:31:46 -04:00
555ab0853b
gnu: Add emacs-zotxt.
...
* gnu/packages/emacs.scm (emacs-zotxt): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-05-31 18:13:09 +02:00
45dca193a4
gnu: Add emacs-org-caldav.
...
* gnu/packages/emacs.scm (emacs-org-caldav): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-05-31 18:13:08 +02:00
ec8a9892d1
gnu: Add python-bigfloat.
...
* gnu/packages/python.scm (python-bigfloat, python2-bigfloat): New
variables.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-05-31 18:13:08 +02:00
73d854232f
gnu: bear: Fix python path.
...
* gnu/packages/build-tools.scm (bear)
[inputs]: Add python-wrapper.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-05-31 18:13:08 +02:00
b1059b38b2
system: 'read-boot-parameters' provides a more meaningful warning.
...
'system' here was bound to Guile's 'system' procedure.
* gnu/system.scm (read-boot-parameters): Fix argument for fallback
warning.
2018-05-31 18:13:08 +02:00
69a05eab35
file-systems: Always wait for devices to show up.
...
Previously, 'canonicalize-device-spec' would wait for devices when they
were specified as a label or UUID, but would not wait when the user
passed a "/dev" file name directly. This could cause problems when
the /dev node takes a while to show up.
* gnu/build/file-systems.scm (canonicalize-device-spec): Add 'resolve'
call in the 'string?' case.
2018-05-31 18:13:08 +02:00
59f87b44da
Merge branch 'master' into core-updates
2018-05-31 13:23:49 +02:00
404e5c7d7d
gnu: r-servr: Update to 0.10.
...
* gnu/packages/web.scm (r-servr): Update to 0.10.
[native-inputs]: Remove r-rcpp.
2018-05-31 13:21:31 +02:00
ce8b9e3b1c
gnu: r-seurat: Update to 2.3.1.
...
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.1.
[propagated-inputs]: Remove r-gridextra; add r-reticulate.
2018-05-31 13:21:31 +02:00
508dd24abe
gnu: r-shiny: Update to 1.1.0.
...
* gnu/packages/web.scm (r-shiny): Update to 1.1.0.
[source]: Fetch from git.
[propagated-inputs]: Add r-crayon.
2018-05-31 13:21:31 +02:00
eb0d599a67
gnu: r-rjson: Update to 0.2.19.
...
* gnu/packages/web.scm (r-rjson): Update to 0.2.19.
2018-05-31 13:21:31 +02:00
71644c0ee8
gnu: r-htmltable: Update to 1.12.
...
* gnu/packages/web.scm (r-htmltable): Update to 1.12.
2018-05-31 13:21:31 +02:00
beb0878fe5
gnu: r-directlabels: Update to 2018.05.22.
...
* gnu/packages/statistics.scm (r-directlabels): Update to 2018.05.22.
2018-05-31 13:21:31 +02:00
089e037638
gnu: r-ranger: Update to 0.10.0.
...
* gnu/packages/statistics.scm (r-ranger): Update to 0.10.0.
2018-05-31 13:21:31 +02:00
14bb6f5f83
gnu: r-tclust: Update to 1.4-1.
...
* gnu/packages/statistics.scm (r-tclust): Update to 1.4-1.
2018-05-31 13:21:31 +02:00
9fad62743c
gnu: r-caret: Update to 6.0-80.
...
* gnu/packages/statistics.scm (r-caret): Update to 6.0-80.
2018-05-31 13:21:31 +02:00
9bcc68fbf6
gnu: r-quantreg: Update to 5.36.
...
* gnu/packages/statistics.scm (r-quantreg): Update to 5.36.
2018-05-31 13:21:31 +02:00
13dc492435
gnu: r-rrcov: Update to 1.4-4.
...
* gnu/packages/statistics.scm (r-rrcov): Update to 1.4-4.
2018-05-31 13:21:31 +02:00
6f96c2d89e
gnu: r-ggthemes: Update to 3.5.0.
...
* gnu/packages/statistics.scm (r-ggthemes): Update to 3.5.0.
2018-05-31 13:21:31 +02:00
366dd8d7cb
gnu: r-runit: Update to 0.4.32.
...
* gnu/packages/statistics.scm (r-runit): Update to 0.4.32.
2018-05-31 13:21:31 +02:00
edb29f2986
gnu: r-purrr: Update to 0.2.5.
...
* gnu/packages/statistics.scm (r-purrr): Update to 0.2.5.
2018-05-31 13:21:31 +02:00
e94d827440
gnu: r-tidyr: Update to 0.8.1.
...
* gnu/packages/statistics.scm (r-tidyr): Update to 0.8.1.
2018-05-31 13:21:31 +02:00
1957c20e0c
gnu: r-synchronicity: Update to 1.3.4.
...
* gnu/packages/statistics.scm (r-synchronicity): Update to 1.3.4.
2018-05-31 13:21:31 +02:00
7da0790e2a
gnu: r-rngtools: Update to 1.3.1.
...
* gnu/packages/statistics.scm (r-rngtools): Update to 1.3.1.
2018-05-31 13:21:31 +02:00
3a6051659d
gnu: r-pkgmaker: Update to 0.27.
...
* gnu/packages/statistics.scm (r-pkgmaker): Update to 0.27.
[propagated-inputs]: Add r-bibtex, r-magrittr, r-stringi, and r-withr.
2018-05-31 13:21:31 +02:00
b4ca0076bd
gnu: r-lambda-r: Update to 1.2.3.
...
* gnu/packages/statistics.scm (r-lambda-r): Update to 1.2.3.
2018-05-31 13:21:31 +02:00
a52bb97a79
gnu: r-plotrix: Update to 3.7-2.
...
* gnu/packages/statistics.scm (r-plotrix): Update to 3.7-2.
2018-05-31 13:21:31 +02:00
1ce6be5ee2
gnu: r-data-table: Update to 1.11.4.
...
* gnu/packages/statistics.scm (r-data-table): Update to 1.11.4.
2018-05-31 13:21:31 +02:00
2d7758c1d6
gnu: r-rlang: Update to 0.2.1.
...
* gnu/packages/statistics.scm (r-rlang): Update to 0.2.1.
2018-05-31 13:21:31 +02:00
624283a107
gnu: r-knitrbootstrap: Update to 1.0.2.
...
* gnu/packages/statistics.scm (r-knitrbootstrap): Update to 1.0.2.
[propagated-inputs]: Add r-markdown.
2018-05-31 13:21:31 +02:00
22cdc16fa4
gnu: r-pheatmap: Update to 1.0.10.
...
* gnu/packages/statistics.scm (r-pheatmap): Update to 1.0.10.
2018-05-31 13:21:31 +02:00
99b225f3eb
gnu: r-bit: Update to 1.1-14.
...
* gnu/packages/statistics.scm (r-bit): Update to 1.1-14.
2018-05-31 13:21:31 +02:00
3c441be0f3
gnu: r-kernlab: Update to 0.9-26.
...
* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-26.
2018-05-31 13:21:31 +02:00
ad016826c9
gnu: r-rmysql: Update to 0.10.15.
...
* gnu/packages/databases.scm (r-rmysql): Update to 0.10.15.
2018-05-31 13:21:31 +02:00
aea3be250c
gnu: r-mice: Update to 3.0.0.
...
* gnu/packages/cran.scm (r-mice): Update to 3.0.0.
[propagated-inputs]: Add r-broom, r-dplyr, r-mitml, and r-rlang.
2018-05-31 13:21:31 +02:00
6034a62a1b
gnu: r-callr: Update to 2.0.4.
...
* gnu/packages/cran.scm (r-callr): Update to 2.0.4.
[propagated-inputs]: Add r-processx; remove r-assertthat, r-crayon, r-debugme,
and r-testthat.
2018-05-31 13:21:31 +02:00
a8b4677b7c
gnu: r-openxlsx: Update to 4.1.0.
...
* gnu/packages/cran.scm (r-openxlsx): Update to 4.1.0.
[propagated-inputs]: Add r-zip.
2018-05-31 13:21:31 +02:00
e86d3cc501
gnu: r-shinyace: Update to 0.3.1.
...
* gnu/packages/cran.scm (r-shinyace): Update to 0.3.1.
[propagated-inputs]: Add r-jsonlite.
2018-05-31 13:21:31 +02:00
a80606308a
gnu: r-processx: Update to 3.1.0.
...
* gnu/packages/cran.scm (r-processx): Update to 3.1.0.
[propagated-inputs]: Remove r-debugme; add r-testthat.
2018-05-31 13:21:31 +02:00
9944399ae3
gnu: r-ggally: Update to 1.4.0.
...
* gnu/packages/cran.scm (r-ggally): Update to 1.4.0.
[inputs]: Add libressl.
[propagated-inputs]: Add r-rlang.
2018-05-31 13:21:31 +02:00
13079c143b
gnu: r-psych: Update to 1.8.4.
...
* gnu/packages/cran.scm (r-psych): Update to 1.8.4.
2018-05-31 13:21:31 +02:00
aadb9ee6df
gnu: r-pillar: Update to 1.2.3.
...
* gnu/packages/cran.scm (r-pillar): Update to 1.2.3.
2018-05-31 13:21:31 +02:00
65ea783f6c
gnu: r-utf8: Update to 1.1.4.
...
* gnu/packages/cran.scm (r-utf8): Update to 1.1.4.
2018-05-31 13:21:31 +02:00
c36745cf95
gnu: r-ggjoy: Update to 0.4.1.
...
* gnu/packages/cran.scm (r-ggjoy): Update to 0.4.1.
2018-05-31 13:21:31 +02:00
cda93e8399
gnu: r-dtw: Update to 1.20-1.
...
* gnu/packages/cran.scm (r-dtw): Update to 1.20-1.
2018-05-31 13:21:31 +02:00
fabf09934b
gnu: r-ica: Update to 1.0-2.
...
* gnu/packages/cran.scm (r-ica): Update to 1.0-2.
2018-05-31 13:21:31 +02:00
1e31e8bc74
gnu: r-sm: Update to 2.2-5.5.
...
* gnu/packages/cran.scm (r-sm): Update to 2.2-5.5.
2018-05-31 13:21:31 +02:00
da5cca36b7
gnu: r-hardyweinberg: Update to 1.6.1.
...
* gnu/packages/cran.scm (r-hardyweinberg): Update to 1.6.1.
2018-05-31 13:21:31 +02:00
0759d87dfc
gnu: r-ggrepel: Update to 0.8.0.
...
* gnu/packages/cran.scm (r-ggrepel): Update to 0.8.0.
2018-05-31 13:21:31 +02:00
b13b56743b
gnu: r-cvst: Update to 0.2-2.
...
* gnu/packages/cran.scm (r-cvst): Update to 0.2-2.
2018-05-31 13:21:31 +02:00
975ea10d6f
gnu: r-energy: Update to 1.7-4.
...
* gnu/packages/cran.scm (r-energy): Update to 1.7-4.
2018-05-31 13:21:31 +02:00
90f1ecb939
gnu: r-emdbook: Update to 1.3.10.
...
* gnu/packages/cran.scm (r-emdbook): Update to 1.3.10.
2018-05-31 13:21:31 +02:00
0acbf8bbb7
gnu: r-inline: Update to 0.3.15.
...
* gnu/packages/cran.scm (r-inline): Update to 0.3.15.
2018-05-31 13:21:31 +02:00
207c497e14
gnu: r-ff: Update to 2.2-14.
...
* gnu/packages/cran.scm (r-ff): Update to 2.2-14.
2018-05-31 13:21:31 +02:00
c81497b141
gnu: r-rcpp: Update to 0.12.17.
...
* gnu/packages/cran.scm (r-rcpp): Update to 0.12.17.
2018-05-31 13:21:31 +02:00
5479e3e639
gnu: r-abbyyr: Update to 0.5.4.
...
* gnu/packages/cran.scm (r-abbyyr): Update to 0.5.4.
2018-05-31 13:21:31 +02:00
11de8673d1
gnu: Add r-bibtex.
...
* gnu/packages/cran.scm (r-bibtex): New variable.
2018-05-31 13:21:31 +02:00
9f56ceecf3
gnu: Add r-reticulate.
...
* gnu/packages/cran.scm (r-reticulate): New variable.
2018-05-31 13:21:31 +02:00
d182828f53
gnu: Add r-zip.
...
* gnu/packages/cran.scm (r-zip): New variable.
2018-05-31 13:21:31 +02:00
84e7147ae3
gnu: Add r-mitml.
...
* gnu/packages/cran.scm (r-mitml): New variable.
2018-05-31 13:21:31 +02:00
03e718fbb1
gnu: Add r-pan.
...
* gnu/packages/cran.scm (r-pan): New variable.
2018-05-31 13:21:31 +02:00
fe1495e35c
gnu: Add r-jomo.
...
* gnu/packages/cran.scm (r-jomo): New variable.
2018-05-31 13:21:31 +02:00
3ca317359c
gnu: r-vegan: Update to 2.5-2.
...
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-2.
2018-05-31 13:21:31 +02:00
966e9575a3
gnu: linux-libre@4.14: Update to 4.14.47.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.47.
(%linux-libre-4.14-hash): Update hash.
(linux-libre-arm-generic-4.14, linux-libre-arm-omap2plus-4.14)
(linux-libre-4.14): Remove patch.
2018-05-31 04:17:22 -04:00
55b68174aa
gnu: linux-libre@4.9: Update to 4.9.105.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.105.
Remove patch.
2018-05-31 04:16:05 -04:00
2aab213e36
gnu: linux-libre@4.4: Update to 4.4.135.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.135.
Remove patch.
2018-05-31 04:14:57 -04:00
1e341fa508
gnu: powertabeditor: Fix build with Qt 5.11.
...
Fixes <https://bugs.gnu.org/31659 >.
* gnu/packages/music.scm (powertabeditor)[arguments]: Add build phase
"add-missing-headers".
2018-05-31 08:30:45 +02:00
d2dde99e99
gnu: mariadb: Update to 10.1.33.
...
* gnu/packages/databases.scm (mariadb): Update to 10.1.33.
2018-05-31 08:45:58 +03:00
0d6f84aab1
Merge branch 'master' into core-updates
2018-05-31 00:27:03 -04:00
88a3465e4a
gnu: linux-libre: Revert bad upstream patch in 4.14/4.9/4.4 kernels.
...
Apply the 1-line revert from upstream that was the sole fix in 4.14.47,
4.9.105, and 4.4.135. Here we cherry-pick the patch until the corresponding
linux-libre versions are released.
* gnu/packages/linux.scm (linux-libre-4.14, linux-libre-4.9)
(linux-libre-arm-generic-4.14, linux-libre-arm-omap2plus-4.14)
(linux-libre-4.4): Add the patch.
2018-05-31 00:23:41 -04:00
706d6190ca
gnu: 0ad: Update to 0.0.23-alpha.
...
* gnu/packages/games.scm (0ad-data, 0ad): Update to 0.0.23-alpha.
[source]: Use HTTPS URL.
[inputs]: Add libsodium.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-31 00:21:47 -04:00
e9ae846667
gnu: knot: Update to 2.6.7.
...
* gnu/packages/dns.scm (knot): Update to 2.6.7.
2018-05-31 04:54:58 +02:00
51c4fb007a
gnu: duperemove: Update to 0.11.
...
* gnu/packages/disk.scm (duperemove): Update to 0.11.
2018-05-31 04:54:58 +02:00
42d93a32ee
gnu: sakura: Update to 3.6.0.
...
* gnu/packages/terminals.scm (sakura): Update to 3.6.0.
2018-05-31 04:54:58 +02:00
4ef1d9fd8b
gnu: stunnel: Update to 5.46.
...
* gnu/packages/web.scm (stunnel): Update to 5.46.
2018-05-31 04:54:57 +02:00
6c4d1413f2
gnu: mkvtoolnix: Use INVOKE.
...
* gnu/packages/video.scm (mkvtoolnix)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:57 +02:00
8d5960d1b1
gnu: liba52: Use INVOKE.
...
* gnu/packages/video.scm (liba52)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:57 +02:00
3103101ec9
gnu: aalib: Use INVOKE.
...
* gnu/packages/video.scm (aalib)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:56 +02:00
d840f6b98a
gnu: xapian: Use INVOKE.
...
* gnu/packages/search.scm (xapian)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:56 +02:00
6c738fe9e7
gnu: khal: Use INVOKE.
...
* gnu/packages/calendar.scm (khal)[arguments]: Substitute INVOKE for
SYSTEM* and explicitly return #t from phases where needed.
2018-05-31 04:54:56 +02:00
4133914416
gnu: rss-bridge: Use INVOKE.
...
* gnu/packages/web.scm (rss-bridge)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:55 +02:00
a145d7e9af
gnu: python-clf: Use INVOKE.
...
* gnu/packages/web.scm (python-clf)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:55 +02:00
b8150fa091
gnu: python-internetarchive: Use INVOKE.
...
* gnu/packages/web.scm (python-internetarchive)[arguments]: Substitute
INVOKE for SYSTEM*.
2018-05-31 04:54:54 +02:00
16b5dafc4d
gnu: httptunnel: Use INVOKE.
...
* gnu/packages/web.scm (httptunnel)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:54 +02:00
2cdc719193
gnu: surfraw: Use INVOKE.
...
* gnu/packages/web.scm (surfraw)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:53 +02:00
9cd760f13f
gnu: gumbo-parser: Use INVOKE.
...
* gnu/packages/web.scm (gumbo-parser)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:53 +02:00
7f4e5f19fa
gnu: sassc: Use INVOKE.
...
* gnu/packages/web.scm (sassc)[arguments]: Substitute INVOKE for SYSTEM*
and its plumbing.
2018-05-31 04:54:53 +02:00
b5d587055b
gnu: tidy: Use INVOKE.
...
* gnu/packages/web.scm (tidy)[arguments]: Substitute INVOKE for SYSTEM*.
2018-05-31 04:54:52 +02:00
946e5e8aa1
gnu: tipp10: Use INVOKE.
...
* gnu/packages/education.scm (tipp10)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:52 +02:00
aa0771556e
gnu: krona-tools: Use INVOKE.
...
* gnu/packages/web.scm (krona-tools)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:51 +02:00
359375e649
gnu: fcgiwrap: Use INVOKE.
...
* gnu/packages/web.scm (fcgiwrap)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:51 +02:00
e80c05ac3e
gnu: ffmpeg: Use INVOKE.
...
* gnu/packages/video.scm (ffmpeg)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-05-31 04:54:50 +02:00
512f22f9e8
gnu: r-dplyr: Update to 0.7.5.
...
* gnu/packages/statistics.scm (r-dplyr): Update to 0.7.5.
[propagated-inputs]: Add r-tidyselect.
2018-05-31 04:54:50 +02:00
fc55fe2ef7
gnu: s6-rc: Update to 0.4.0.1.
...
* gnu/packages/skarnet.scm (s6-rc): Update to 0.4.0.1.
2018-05-31 04:54:50 +02:00
1608969b03
gnu: skalibs: Update to 2.6.4.0.
...
* gnu/packages/skarnet.scm (skalibs): Update to 2.6.4.0.
2018-05-31 04:54:49 +02:00
2c65c085f9
gnu: lchat: Mark up description.
...
* gnu/packages/suckless.scm (lchat)[description]: Use @code.
2018-05-31 04:54:48 +02:00
82f22fac9f
gnu: lchat: Update to 0.0.0-3.f951919.
...
* gnu/packages/suckless.scm (lchat): Update to 0.0.0-3.f951919.
[arguments]: Run tests. Install man page.
2018-05-31 04:54:48 +02:00
aa945bf637
gnu: human: Update to 0.3.
...
* gnu/packages/suckless.scm (human): Update to 0.3.
[source]: Use version as the tag, and GIT-FILE-NAME.
2018-05-31 04:54:48 +02:00
8f7c6a5ff7
gnu: sent: Update to 1.
...
* gnu/packages/suckless.scm (sent): Update to 1.
[source]: Switch to URL-FETCH/TARBALL.
2018-05-31 04:54:47 +02:00
fc1a7b58d7
gnu: st: Update to 0.8.1.
...
* gnu/packages/suckless.scm (st): Update to 0.8.1.
[arguments]: Relax ‘inhibit-terminfo-install’ regular expression.
2018-05-31 04:54:47 +02:00
504d16dd04
gnu: spoon: Update to 0.6.
...
* gnu/packages/suckless.scm (spoon): Update to 0.6.
2018-05-31 04:54:46 +02:00
a66fb3a14e
gnu: isync: Add zlib compression support.
...
This adds ~400 KiB (.5%) to isync's now-73.1 MiB closure.
* gnu/packages/mail.scm (isync)[inputs]: Add ZLIB.
2018-05-30 23:46:53 +02:00
03d9031962
gnu: mariadb: Update to 10.1.33.
...
* gnu/packages/databases.scm (mariadb): Update to 10.1.33.
2018-05-30 22:46:31 +03:00
370e87fdbb
gnu: linux-libre: Update to 4.16.13.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.16.13.
(%linux-libre-hash): Update hash.
2018-05-30 14:59:47 -04:00
49e67982eb
gnu: linux-libre@4.14: Update to 4.14.46.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.46.
(%linux-libre-4.14-hash): Update hash.
2018-05-30 14:58:49 -04:00
f9e1c2d72a
gnu: linux-libre@4.9: Update to 4.9.104.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.104.
2018-05-30 14:58:09 -04:00
13fcbf3cce
gnu: linux-libre@4.4: Update to 4.4.134.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.134.
2018-05-30 14:57:22 -04:00
6f8f98df7f
gnu: scribus: Fix build against Qt 5.11.
...
* gnu/packages/scribus.scm (scribus)[arguments]: Add a 'patch-source' phase
that includes missing headers.
2018-05-30 20:45:17 +02:00
9ab0627eee
gnu: glibc-locales: Adjust patch that no longer applied.
...
* gnu/packages/patches/glibc-locales.patch: Adjust for glibc 2.27.
2018-05-30 15:21:27 +02:00
80c0f69c50
gnu: emms: Fix build.
...
* gnu/packages/emacs.scm (emms)[arguments]: Reset time stamps of files to be
gzipped; let post-install phase return #t.
2018-05-30 14:54:53 +02:00
bc73f673e8
gnu: icedtea-7: Build with gcc-4.9.
...
* gnu/packages/java.scm (icedtea-7)[native-inputs]: Add gcc-4.9.
2018-05-30 12:29:14 +02:00
bcb078a4dc
gnu: icedtea-6: Build with gcc-4.9.
...
* gnu/packages/java.scm (icedtea-6)[native-inputs]: Add gcc-4.9 and libnsl.
2018-05-30 11:06:21 +02:00
d0e23e3940
gnu: vlc: Update to 3.0.3, and add more inputs.
...
Co-authored-by: Roel Janssen <roel@gnu.org>
* gnu/packages/video.scm (vlc): Update to 3.0.3.
[native-inputs]: Add flex, bison, and gettext-minimal.
[inputs]: Replace ffmpeg-2.8 with the latest ffmpeg. Replace lua-5.1 with
lua-5.2. Add eudev, fribidi, libarchive, libass, libavc1394, libbluray,
libcaca, libdca, libdvdnav, libdvdread, libebml, libidn, libmatroska,
libmodplug, libmpeg2, libraw1394, librsvg, libsecret, libupnp, libva,
libvdpau, libvpx, libx264, qtsvg, samba, speexdsp, taglib, twolame, unzip,
wayland, and wayland-protocols.
[arguments]: Add BUILDCC=gcc to configure-flags. In the 'patch-source' phase,
remove a vestigial substitution fix, enable the use of fribidi deprecated
interfaces, and adjust the file names in substitutions from "gui/qt4" to
"gui/qt". Move the 'regenerate-plugin-cache' phase after 'strip', and in it,
set the timestamps to 1 second after the epoch, and use 'invoke'. Add new
'wrap-executable' phase.
Signed-off-by: Clément Lassieur <clement@lassieur.org>
2018-05-30 11:02:57 +02:00
cfcd9a4551
gnu: wireshark: End phase with #t.
...
* gnu/packages/networking.scm (wireshark)[arguments]: End 'patch-source' phase
with #t.
2018-05-30 11:02:52 +02:00
3fe0d36027
gnu: perl-text-format: Update to 0.61.
...
* gnu/packages/perl.scm (perl-text-format): Update to 0.61.
2018-05-30 10:06:57 +02:00
2847d833be
gnu: python-oslo.utils: Update to 3.36.2.
...
* gnu/packages/openstack.scm (python-oslo.utils): Update to 3.36.2.
2018-05-30 10:06:57 +02:00
14e2f61ada
gnu: gtkglext: Fix build.
...
* gnu/packages/gnome.scm (gtkglext)[arguments]: Add build phase to fix name
collision.
2018-05-30 08:57:33 +02:00
341a36b32c
Merge branch 'master' into core-updates
2018-05-30 02:21:29 -04:00
a21bcd7079
Revert "gnu: swig: Patch for Octave 4.4."
...
This reverts commit 3771000f89
2018-05-30 02:18:26 -04:00
bfc25e015d
gnu: xpra: Update to 2.3.1.
...
* gnu/packages/xorg.scm (xpra): Update to 2.3.1.
[inputs]: Add libxi.
2018-05-30 08:14:23 +02:00
b3e23b0216
gnu: ibus-libpinyin: Update to 1.10.0.
...
* gnu/packages/ibus.scm (ibus-libpinyin): Update to 1.10.0.
[arguments]: Remove "autogen" phase.
[native-inputs]: Remove autoconf, automake, and libtool.
2018-05-30 07:42:20 +02:00
8738c2b342
gnu: libpinyin: Update to 2.2.0.
...
* gnu/packages/ibus.scm (libpinyin): Update to 2.2.0.
[arguments]: Remove.
[inputs]: Remove model.
[native-inputs]: Remove autoconf, automake, and libtool.
2018-05-30 07:42:19 +02:00
7627705293
gnu: vlc: Update to 3.0.3, and add more inputs.
...
Co-authored-by: Roel Janssen <roel@gnu.org>
* gnu/packages/video.scm (vlc): Update to 3.0.3.
[native-inputs]: Add flex, bison, and gettext-minimal.
[inputs]: Replace ffmpeg-2.8 with the latest ffmpeg. Replace lua-5.1 with
lua-5.2. Add eudev, fribidi, libarchive, libass, libavc1394, libbluray,
libcaca, libdca, libdvdnav, libdvdread, libebml, libidn, libmatroska,
libmodplug, libmpeg2, libraw1394, librsvg, libsecret, libupnp, libva,
libvdpau, libvpx, libx264, qtsvg, samba, speexdsp, taglib, twolame, unzip,
wayland, and wayland-protocols.
[arguments]: Add BUILDCC=gcc to configure-flags. In the 'patch-source' phase,
remove a vestigial substitution fix, enable the use of fribidi deprecated
interfaces, and adjust the file names in substitutions from "gui/qt4" to
"gui/qt". Move the 'regenerate-plugin-cache' phase after 'strip', and in it,
set the timestamps to 1 second after the epoch, and use 'invoke'. Add new
'wrap-executable' phase.
2018-05-30 00:17:35 -04:00
7cb8d092d5
gnu: linux-libre@4.1: Update to 4.1.52.
...
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.52.
2018-05-29 23:16:14 -04:00
c0d7c1244a
Merge branch 'master' into core-updates
2018-05-29 21:20:47 -04:00
f274f0774d
gnu: tiled: Update to 1.1.5.
...
* gnu/packages/game-development.scm (tiled): Update to 1.1.5.
2018-05-29 21:20:27 -04:00
9cf879a573
gnu: Add go-github-com-gorilla-context.
...
* gnu/packages/golang.scm (go-github-com-gorilla-context): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:08 -04:00
daed2c5e6a
gnu: Add go-github-com-google-gofuzz.
...
* gnu/packages/golang.scm (go-github-com-google-gofuzz): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:08 -04:00
73fe19ef28
gnu: Add go-github-com-google-cadvisor.
...
* gnu/packages/golang.scm (go-github-com-google-cadvisor): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:08 -04:00
7979f7df9a
gnu: Add go-github-com-emicklei-go-restful.
...
* gnu/packages/golang.scm (go-github-com-emicklei-go-restful): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:08 -04:00
67836c5956
gnu: Add go-github-com-blang-semver.
...
* gnu/packages/golang.scm (go-github-com-blang-semver): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:08 -04:00
7c2ebbd4a6
gnu: Add go-github-com-urfave-cli.
...
* gnu/packages/golang.scm (go-github-com-urfave-cli): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-05-29 18:39:05 -04:00
5a14e81e41
gnu: Update shogun to 6.1.3.
...
* gnu/packages/machine-learning.scm (shogun): Update to 6.1.3.
[source]: Update snippet to remove proprietary software.
[arguments]: Rewrite list of symlinks in 'delete-broken-symlinks' phase.
Rewrite file lists given to substitute* in 'change-R-target-path' and
'fix-octave-modules' phases. Adjust 'fix-octave-modules' for the update.
Add 'move-rxcpp' phase. Rewrite configure-flags for the update.
[inputs]: Add eigen.
[native-inputs]: Add rxcpp.
2018-05-29 18:20:38 -04:00
3771000f89
gnu: swig: Patch for Octave 4.4.
...
* gnu/packages/swig.scm (swig)[source]: Add patch.
* gnu/packages/patches/swig-octave-patches.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
2018-05-29 18:20:38 -04:00
44884a9df8
gnu: eigen: Include unsupported features.
...
* gnu/packages/algebra.scm (eigen)[source]: Do not build the tests for
unsupported features, but include the files.
Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
2018-05-29 18:20:38 -04:00
3a354e104a
gnu: Add rxcpp.
...
* gnu/packages/machine-learning.scm (rxcpp): New variable.
2018-05-29 18:20:37 -04:00
de658cc2f8
gnu: octave: Update to 4.4.0.
...
* gnu/packages/maths.scm (octave): Update to 4.4.0.
2018-05-29 18:20:37 -04:00
f0dd127d0a
gnu: mpd: Update to 0.20.20.
...
* gnu/packages/mpd.scm (mpd): Update to 0.20.20.
2018-05-29 18:00:34 -04:00
e5bbfc7df0
gnu: mypaint-brushes: Fetch source from git.
...
* gnu/packages/gimp.scm (mypaint-brushes)[source]: Fetch source from git.
2018-05-29 23:24:32 +02:00
5686be393b
gnu: mypaint-brushes: Fix build.
...
* gnu/packages/gimp.scm (mypaint-brushes)[arguments]: Remove bootstrap phase;
add "relax-dependency-version" phase.
2018-05-29 23:24:32 +02:00
d2e1da18b0
gnu: python-pygobject: Delete broken tests.
...
* gnu/packages/glib.scm (python-pygobject)[arguments]: Add phase
"delete-broken-tests".
2018-05-29 23:24:32 +02:00
1b043aeb85
gnu: python2-pygobject: Add native-inputs.
...
* gnu/packages/glib.scm (python2-pygobject)[native-inputs]: New field.
2018-05-29 23:17:48 +02:00
59f6dfe552
gnu: python-pygobject: Update to 3.28.2.
...
* gnu/packages/glib.scm (python-pygobject): Update to 3.28.2.
[native-inputs]: Add python-pytest.
2018-05-29 22:43:00 +02:00
660c9b4788
gnu: modem-manager: Fix build.
...
* gnu/packages/freedesktop.scm (modem-manager)[arguments]: Add configure flag
to avoid aborting on certain warnings.
2018-05-29 22:11:04 +02:00
b50196c3a4
gnu: Git: Update to 2.17.1 [fixes CVE 2018-{11234,11235}].
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* gnu/packages/version-control.scm (git): Update to 2.17.1.
2018-05-29 16:00:02 -04:00
0eeade9b53
gnu: pan: Update to 0.145.
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* gnu/packages/mail.scm (pan): Update to 0.145.
2018-05-29 20:43:38 +02:00
3b68a9b66e
gnu: disorderfs: Update to 0.5.3.
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* gnu/packages/file-systems.scm (disorderfs): Update to 0.5.3.
[source]: Update upstream URI and re-use VERSION.
2018-05-29 20:43:37 +02:00
e5ab03b51d
gnu: thefuck: Update to 3.27.
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* gnu/packages/admin.scm (thefuck): Update to 3.27.
2018-05-29 20:43:37 +02:00
e3d779cc93
gnu: Wireshark: Update to 2.6.1.
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* gnu/packages/networking.scm (wireshark): Update to 2.6.1.
2018-05-29 14:39:22 -04:00
4d0f463d6b
gnu: xdg-utils: Update to 1.1.3 [fixes CVE-2017-18266].
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* gnu/packages/freedesktop.scm (xdg-utils): Update to 1.1.3.
2018-05-29 14:39:22 -04:00
Ricardo Wurmus