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Author SHA1 Message Date
Tanguy Le Carrour
a356d1b68d
gnu: python-jsonschema: Update to 3.2.0. 
* gnu/packages/python-xyz.scm (python-jsonschema): Update to 3.2.0.
[propagated-inputs]: Add python-importlib-metadata.
[arguments]: Use add-installed-pythonpath to make a test pass.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2020-03-24 17:10:19 -04:00
Tanguy Le Carrour
2c15cb5898
gnu: python-pexpect: Update to 4.8.0. 
* gnu/packages/python-xyz.scm (python-pexpect): Update to 4.8.0.
[arguments]: Disable failing test.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2020-03-24 17:10:19 -04:00
Paul Garlick
5e44011bfb
gnu: perl-mail-sendmail: Add line above definition. 
* gnu/packages/perl.scm (perl-mail-sendmail): Add line.
 2020-03-24 20:08:05 +00:00
Paul Garlick
25022bfd3a
gnu: Add perl-mail-sendmail. 
* gnu/packages/perl.scm (perl-mail-sendmail): New variable.
 2020-03-24 19:59:43 +00:00
Christopher Baines
57e12aad6d
scripts: lint: Handle store connections for lint checkers. 
Rather than individual checkers opening up a connection to the store for each
package to check, if any checker requires a store connection, open a
connection and pass it to all checkers that would use it. This makes running
the derivation checker much faster for multiple packages.

* guix/scripts/lint.scm (run-checkers): Add a #:store argument, and pass the
store to checkers if they require a store connection.
(guix-lint): Establish a store connection if any checker requires one, and
pass it through to run-checkers.
 2020-03-24 19:47:46 +00:00
Christopher Baines
7826fbc02b
lint: Add a #:store argument to check-derivation 
This can then be used to avoid opening up a store connection each time a
package needs checking.

* guix/lint.scm (check-derivation): Add a #:store argument, and pull the
handling of the store connection out of the try function.
 2020-03-24 19:47:46 +00:00
Christopher Baines
d84ad6a24e
lint: Mark the derivation checker as requiring a store connection. 
* guix/lint.scm (%local-checkers): Mark the derivation checker as requiring a
store connection.
 2020-03-24 19:47:46 +00:00
Christopher Baines
3874dc5ef2
lint: Add a requires-store? field to the checker record. 
This can then be used to mark checkers that require a store connection, which
will enable passing a connection in, avoiding the overhead of establishing a
connection inside the check function when it's run for lots of different
packages.

* guix/lint.scm (<lint-checker>): Add requires-store? to the record type.
 2020-03-24 19:47:43 +00:00
Josh Marshall
b14c234c0d
gnu: Add Docusign API Python client. 
* gnu/packages/python-xyz.scm (python-docusign-esign): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2020-03-24 15:36:20 -04:00
Danny Milosavljevic
be743fc0fd
doc: Document that a working environment for building Guix requires "--pure". 
* doc/guix.texi (Invoking guix environment): Document that a working
environment for building Guix requires "--pure".
 2020-03-24 19:25:25 +01:00
Ludovic Courtès
637db76d7a
guix system: Fix mistaken 'guix pull' warning upon 'reconfigure'. 
Fixes <https://bugs.gnu.org/38196>.
Reported by Florian Pelz <pelzflorian@pelzflorian.de>.

* guix/scripts/system.scm (maybe-suggest-running-guix-pull): Check
whether 'current-profile' returns true instead of checking for the
existence of ~root/.config/guix/current.  That way, "sudo guix system
reconfigure" no longer emits a warning in that case.
 2020-03-24 18:54:41 +01:00
Ludovic Courtès
72a5cc5358
gnu: automake: Add version 1.16.2. 
* gnu/packages/autotools.scm (automake-1.16.2): New variable.
 2020-03-24 18:03:18 +01:00
Ludovic Courtès
53c594cb3f
pack: Do not store extended attributes in squashfs images. 
* guix/scripts/pack.scm (squashfs-image)[build](mksquashfs): Pass "-no-xattrs".
 2020-03-24 16:56:19 +01:00
Ludovic Courtès
8465f1f680
ui: 'show-manifest-transaction' tabulates package lists for install/remove. 
It also removes the store file name from the output.

* guix/ui.scm (show-manifest-transaction)[package-strings]: Rewrite to
use 'tabulate'.  Remove 'item' parameter and adjust callers.
 2020-03-24 15:44:45 +01:00
Ludovic Courtès
3e5ab0a7a9
ui: 'show-manifest-transaction' tabulates upgraded package lists. 
This also changes "1.0.0 → 1.0.0" to "(dependencies changed)", which is
probably less confusing.

* guix/ui.scm (tabulate): New procedure.
(show-manifest-transaction)[upgrade-string]: Rewrite to take lists of
names, versions, and outputs instead of single elements.  Use
'tabulate'.  Adjust callers accordingly.
 2020-03-24 15:44:45 +01:00
Martin Becze
cf2b91aad0
import: crate: Deduplicate dependencies. 
* guix/import/crate.scm (crate-version-dependencies): Deduplicate crate dependencies.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-03-24 15:44:45 +01:00
Martin Becze
b488b64a3e
gnu: Add guile3.0-semver. 
* gnu/packages/guile-xyz.scm (guile3.0-semver): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-03-24 15:44:45 +01:00
Efraim Flashner
08d5341b1f
gnu: nano: Update to 4.9. 
* gnu/packages/nano.scm (nano): Update to 4.9.
 2020-03-24 15:47:58 +02:00
Naga Malleswari
54a9fe3429
doc: Fix typo in example. 
* doc/guix.texi (Base Services)[file->udev-rule]: Correct misspelt
"user-account".

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2020-03-24 13:10:43 +01:00
Naga Malleswari
022767d7c1
doc: Fix typo. 
* doc/guix.texi (Invoking guix time-machine): Fix typo.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2020-03-24 13:07:17 +01:00
Guillaume Le Vaillant
151f3d416c
gnu: Add qgis. 
* gnu/packages/geo.scm (qgis): New variable.

Co-authored-by: Wiktor Żelazny <wzelazny@vurv.cz>
Co-authored-by: Arun Isaac <arunisaac@systemreboot.net>
 2020-03-24 11:42:41 +01:00
Arun Isaac
d13d28265f
licenses: Add QWT 1.0 license. 
* guix/licenses.scm (qwt1.0): New variable.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2020-03-24 11:42:41 +01:00
Arun Isaac
5d33e789c2
licenses: Add Open Government Licence for Public Sector Information. 
* guix/licenses.scm (ogl-psi1.0): New variable.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2020-03-24 11:42:40 +01:00
Guillaume Le Vaillant
f7ac2fe1ce
gnu: Add saga. 
* gnu/packages/geo.scm (saga): New variable.
 2020-03-24 11:42:40 +01:00
Guillaume Le Vaillant
9fce591479
gnu: Add grass. 
* gnu/packages/geo.scm (grass): New variable.
 2020-03-24 11:42:40 +01:00
Guillaume Le Vaillant
efcb05083f
gnu: Add python-owslib. 
* gnu/packages/python-xyz.scm (python-owslib): New variable.
 2020-03-24 11:42:40 +01:00
Ricardo Wurmus
b0d1da986b
gnu: r-harmony: Update to 0.1. 
* gnu/packages/cran.scm (r-harmony): Update to 0.1.
[native-inputs]: Add autoconf.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
8ff6386491
gnu: r-shiny: Update to 1.4.0.2. 
* gnu/packages/cran.scm (r-shiny): Update to 1.4.0.2.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
5d45d71170
gnu: r-multiassayexperiment: Update to 1.12.5. 
* gnu/packages/bioconductor.scm (r-multiassayexperiment): Update to 1.12.5.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
1f2f01aed5
gnu: r-bigpint: Update to 1.2.2. 
* gnu/packages/bioconductor.scm (r-bigpint): Update to 1.2.2.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
4bcb38c801
gnu: r-biosigner: Update to 1.14.4. 
* gnu/packages/bioconductor.scm (r-biosigner): Update to 1.14.4.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
d5951dc43a
gnu: r-gosemsim: Update to 2.12.1. 
* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.12.1.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:01 +01:00
Ricardo Wurmus
c649d31957
gnu: r-tximport: Update to 1.14.2. 
* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.14.2.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
c10bef9bd3
gnu: r-caret: Update to 6.0-86. 
* gnu/packages/cran.scm (r-caret): Update to 6.0-86.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
1e40a27465
gnu: r-batchtools: Update to 0.9.13. 
* gnu/packages/cran.scm (r-batchtools): Update to 0.9.13.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
6005efa40f
gnu: r-mcmc: Update to 0.9-7. 
* gnu/packages/cran.scm (r-mcmc): Update to 0.9-7.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
d3836473de
gnu: r-proc: Update to 1.16.2. 
* gnu/packages/cran.scm (r-proc): Update to 1.16.2.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
c5036a4f39
gnu: r-xgboost: Update to 1.0.0.1. 
* gnu/packages/cran.scm (r-xgboost): Update to 1.0.0.1.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
2f445f0da3
gnu: r-radiant-data: Update to 1.3.4. 
* gnu/packages/cran.scm (r-radiant-data): Update to 1.3.4.
[propagated-inputs]: Remove r-gridextra; add r-mass, r-patchwork, and
r-randomizr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
ff248f41cb
gnu: r-patchwork: Update to 1.0.0. 
* gnu/packages/cran.scm (r-patchwork): Update to 1.0.0.
[source]: Fetch from CRAN.
[native-inputs]: Add r-knitr.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
d8dc2a7c1e
gnu: r-igraph: Update to 1.2.5. 
* gnu/packages/graph.scm (r-igraph): Update to 1.2.5.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
f7a21df523
gnu: r-robustbase: Update to 0.93-6. 
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-6.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
7e349066e6
gnu: r-hmisc: Update to 4.4-0. 
* gnu/packages/statistics.scm (r-hmisc): Update to 4.4-0.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
670cbe2c3c
gnu: r-pkgmaker: Update to 0.31.1. 
* gnu/packages/statistics.scm (r-pkgmaker): Update to 0.31.1.
 2020-03-24 11:06:00 +01:00
Ricardo Wurmus
d16a4d1f96
gnu: r-dt: Update to 0.13. 
* gnu/packages/statistics.scm (r-dt): Update to 0.13.
[native-inputs]: Add r-knitr.
 2020-03-24 11:05:59 +01:00
Ricardo Wurmus
f871696911
gnu: r-locfit: Update to 1.5-9.2. 
* gnu/packages/statistics.scm (r-locfit): Update to 1.5-9.2.
 2020-03-24 11:05:59 +01:00
Ricardo Wurmus
e0d6a7da74
gnu: Add r-randomizr. 
* gnu/packages/cran.scm (r-randomizr): New variable.
 2020-03-24 11:05:59 +01:00
Guillaume Le Vaillant
47a2306415
gnu: sbcl: Increase maximum heap size to 2Gb. 
* gnu/packages/lisp.scm (sbcl)[arguments]: Add the "--dynamic-space-size=2Gb"
  option in the build phase.
 2020-03-24 09:31:43 +01:00
Michael Rohleder
0f96fd6454
gnu: dialog: Update to 1.3-20200228. 
* gnu/packages/ncurses.scm (dialog): Update to 1.3-20200228.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2020-03-23 21:17:55 -04:00
Leo Famulari
aae5f89db0
gnu: Git: Update to 2.26.0. 
* gnu/packages/version-control.scm (git): Update to 2.26.0.
[arguments]: Adjust the 'install-credential-netrc' phase to upstream changes.
 2020-03-23 21:17:46 -04:00