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Author SHA1 Message Date
Ricardo Wurmus d8fce2362b
gnu: Add python-hicmatrix. 
* gnu/packages/bioinformatics.scm (python-hicmatrix): New variable.
 2020-04-17 15:53:03 +02:00
Ricardo Wurmus c55beaecd8
gnu: python-cooler: Update to 0.8.7. 
* gnu/packages/bioinformatics.scm (python-cooler): Update to 0.8.7.
[propagated-inputs]: Add python-asciitree, python-numpy, python-pyyaml, and
python-simplejson.
[native-inputs]: Remove python-nose, python-numpydoc, and python-sphinx; add
python-pytest.
 2020-04-17 15:53:03 +02:00
Ricardo Wurmus 4a085ffc16
gnu: python-pybigwig: Update to 0.3.17. 
* gnu/packages/bioinformatics.scm (python-pybigwig): Update to 0.3.17.
 2020-04-17 15:53:03 +02:00
Ricardo Wurmus d3f292b8dc
gnu: python-tables: Update to 3.6.1. 
* gnu/packages/python-xyz.scm (python-tables): Update to 3.6.1.
[arguments]: Adjust use-gcc phase.
 2020-04-17 15:53:03 +02:00
Pierre Langlois 79ef0726a9
gnu: python-podcastparser: Run tests. 
* gnu/packages/gpodder.scm (python-podcastparser)[native-inputs]: Add
python-coverage.
[arguments]: Replace 'check phase and invoke "nosetests".

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-17 13:03:02 +02:00
Pierre Langlois 5ea902874b
gnu: gpodder: Run tests. 
* gnu/packages/gpodder.scm (gpodder)[native-inputs]: Add python-coverage and
python-minimock.
[arguments]: Replace the 'check phase and invoke "make unittest".

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-17 13:03:02 +02:00
Pierre Langlois 54e3eb06ca
gnu: gpodder: Update to 3.10.15. 
* gnu/packages/gpodder.scm (gpodder): Update to 3.10.15.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-17 13:03:02 +02:00
Ludovic Courtès 1cfa6bcc2c
maint: Build binary tarball without '-K'. 
This is a followup to 8b292ffd3c.

* Makefile.am (guix-binary.%.tar.xz): Remove '-K' to allow for offloading.
 2020-04-17 13:03:01 +02:00
Ludovic Courtès 08a70aa424
doc: Replace incorrect uses of @var with @code. 
@var is for meta-syntactic variables but it is used in some places for
mere variables, which is incorrect and leads to inconsistent layout in
PDF and HTML.

* doc/guix.texi (package Reference, The Store Monad)
(G-Expressions, operating-system Reference)
(File Systems, Base Services, Log Rotation)
(Networking Services, Invoking guix deploy): Replace incorrect uses of
@var with @code.
 2020-04-17 13:03:01 +02:00
Pierre Langlois 84ce7c5a55
gnu: dovecot: Add libunwind input for arm. 
* gnu/packages/mail.scm (dovecot)[inputs]: Add libunwind when targetting arm.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-17 13:03:01 +02:00
Efraim Flashner d312bbfa5a
gnu: khard: Move propagated-inputs to inputs. 
As a package one would install we can rely on wrapping the package and
not propagating inputs to make it work correctly.

* gnu/packages/mail.scm (khard)[propagated-inputs]: Move all python
packages ...
[inputs]: ... to here.
 2020-04-17 10:47:35 +03:00
Efraim Flashner c135577dbf
gnu: khal: Move propagated inputs to inputs. 
As a package one would install we can rely on wrapping the package and
not propagating inputs to make it work correctly.

* gnu/packages/calendar.scm (khal)[propagated-inputs]: Move all python
packages...
[inputs]: ... to here.
 2020-04-17 10:42:41 +03:00
Efraim Flashner b9dd2a2fb7
gnu: khal: Fix build with python-urwid-2.1.0. 
* gnu/packages/calendar.scm (khal)[source]: Download upstream patch to
fix compatibility with newer python-urwid.
 2020-04-17 10:40:34 +03:00
Christopher Baines 2cc226bbc7
gnu: diffoscope.scm: Add missing import. 
This follows on from 2d9886f7e8.

* gnu/packages/diffoscope.scm: Import (gnu packages maths).
 2020-04-17 07:33:37 +01:00
Vagrant Cascadian 2d9886f7e8
gnu: diffoscope: Update to 141. 
* gnu/packages/diffoscope (diffoscope): Update to 141.
  [arguments]: Add phase add-known-tools.
  [native-inputs]: Add hdf5.
 2020-04-16 20:46:38 -07:00
Vagrant Cascadian cdac010c19
gnu: disorderfs: Update to 0.5.9. 
* gnu/packages/file-systems (disorderfs): Update to 0.5.9.
 2020-04-16 20:46:35 -07:00
Marius Bakke bff70d93d2
gnu: python-jedi: Fix test failure on some file systems. 
Reported by sirgazil on #guix.

* gnu/packages/patches/python-jedi-sort-project-test.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/python-xyz.scm (python-jedi)[source](patches): Add it.
[arguments]: Run tests more verbosely while at it.
 2020-04-17 00:51:48 +02:00
Nicolas Goaziou 91fb989f10
gnu: xournalpp: Remove outdated comments. 
* gnu/packages/pdf.scm (xournalpp): Remove outdated comments.  This is
a followup to 9cb2f28c5a.
 2020-04-16 23:43:50 +02:00
Ricardo Wurmus c9f321e52a
doc: Document building and installing from JSON files. 
* doc/guix.texi (Invoking guix package): Augment pargraphs for
"--install-from-file".
(Invoking guix build): Document building from JSON files.
* doc/package-hello.json: New file.
* doc/local.mk (EXTRA_DIST): Add it.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 3c0422b9be
import/print: Don't factorize URI if there's no version match. 
* guix/import/print.scm (package->code): If FACTORIZE-URI returns just the
unmodified string use that as the URI.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 3fd4c4c839
import/utils: alist->package: Include arguments. 
* guix/import/utils.scm (alist->package): Process arguments field in input
data and include it in the generated package.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 7cef499bb0
import/json: json->code: Handle files with more than one definition. 
* guix/import/json.scm (json->code): Convert JSON arrays to lists of package
definitions.
(json->scheme-file): Write all expressions to the target file.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 3532fc39ff
import/utils: alist->package: Ignore known inputs. 
* guix/import/utils.scm (alist->package): Accept optional list of known
inputs, which are excluded from the specification lookup.
* guix/import/print.scm (package->code)[package-lists->code]: Handle inputs
which are just symbols.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 86a3b540d0
import/print: package->code: Wrap S-expression in definition. 
* guix/import/print.scm (package->code): Return a definition, not just a
package expression.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus c893432320
import/json: Use json->code. 
* guix/import/json.scm (json->code): Export procedure.
* guix/scripts/import/json.scm (guix-import-json): Use json->code.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 4f353c485d
scripts/package: Handle JSON files. 
* guix/scripts/package.scm (%options): Support loading from JSON files when
"install-from-file" is used.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus f87e563201
scripts/build: options->things-to-build: Handle .json files. 
* guix/scripts/build.scm (options->things-to-build): Handle files that end on
.json.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 16dd764691
import/json: Add json->scheme-file. 
* guix/import/json.scm (json->code, json->scheme-file): New procedures.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 6269dd567e
import/print: package->code: Wrap build system value in module reference. 
* guix/import/print.scm (package->code): Return build system value with
corresponding module.
 2020-04-16 23:41:52 +02:00
Ricardo Wurmus 1475d45112
import/print: Return license with prefix. 
* guix/import/print.scm (license->code): Prepend license: prefix.
 2020-04-16 23:41:49 +02:00
Nicolas Goaziou 7b2cb1bf19
gnu: wireshark: Update to 3.2.3. 
* gnu/packages/networking.scm (wireshark): Update to 3.2.3.
 2020-04-16 21:59:50 +02:00
Efraim Flashner be02a4cb81
gnu: python-hy: Update to 0.18.0. 
* gnu/packages/python-xyz.scm (python-hy): Update to 0.18.0.
[arguments]: Make all phases return #t.
[propagated-inputs]: Remove python-clint, python-fastentrypoints. Add
python-colorama.
(python2-hy): Remove variable.
 2020-04-16 22:40:40 +03:00
Efraim Flashner 626874eb3f
gnu: python-icalendar: Update to 4.0.5. 
* gnu/packages/python-xyz.scm (python-icalendar): Update to 4.0.5.
 2020-04-16 22:40:40 +03:00
Efraim Flashner e40e7fdf09
gnu: toot: Update to 0.26.0. 
* gnu/packages/mastodon.scm (toot): Update to 0.26.0.
 2020-04-16 22:40:39 +03:00
Efraim Flashner bc6c3f48ff
gnu: python-urwid: Update to 2.1.0. 
* gnu/packages/python-xyz.scm (python-urwid): Update to 2.1.0.
 2020-04-16 22:40:39 +03:00
Efraim Flashner c1c2fa68df
gnu: python-vobject: Update to 0.9.6.1. 
* gnu/packages/python-xyz.scm (python-vobject): Update to 0.9.6.1.
 2020-04-16 22:40:39 +03:00
Efraim Flashner 2765787d65
gnu: python-pyicu: Update to 2.4.3. 
* gnu/packages/python-xyz.scm (python-pyicu): Update to 2.4.3.
[properties]: Remove field.
(python2-pyicu): Remove package customizations.
 2020-04-16 22:40:39 +03:00
Efraim Flashner 70333ee612
gnu: khard: Update to 0.16.1. 
* gnu/packages/mail.scm (khard): Update to 0.16.1.
[arguments]: Remove custom 'install-doc phase. Add 'install-completions
phase.
 2020-04-16 22:40:39 +03:00
Nicolas Goaziou 9cb2f28c5a
gnu: xournalpp: Update to 1.0.18. 
* gnu/packages/pdf.scm (xournalpp): Update to 1.0.18.
 2020-04-16 21:38:55 +02:00
Mathieu Othacehe 2e7e0cb547
installer: Remove guile-newt definition. 
This is no longer necessary since 0.0.2 release of Guile-Newt.

* gnu/installer.scm (guile-newt): Remove variable.
 2020-04-16 19:57:30 +02:00
Mathieu Othacehe f52c1f5f61
gnu: guile-newt: Update to 0.0.2. 
* gnu/packages/guile-xyz.scm (guile-newt): Update to 0.0.2,
[source]: remove Guile 3.0 snippet.
 2020-04-16 19:57:30 +02:00
Tobias Geerinckx-Rice c6f74eb540
gnu: xfce4-taskmanager: Update to 1.2.3. 
* gnu/packages/xfce.scm (xfce4-taskmanager): Update to 1.2.3.
[source]: Hard-code NAME.
 2020-04-16 19:42:22 +02:00
Tobias Geerinckx-Rice b760b6922d
gnu: xfwm4: Update to 4.14.1. 
* gnu/packages/xfce.scm (xfwm4): Update to 4.14.1.
[source]: Hard-code NAME.
 2020-04-16 19:42:22 +02:00
Tobias Geerinckx-Rice 0159eae3c9
gnu: xfdesktop: Update to 4.14.2. 
* gnu/packages/xfce.scm (xfdesktop): Update to 4.14.2.
[source]: Hard-code NAME.
 2020-04-16 19:42:22 +02:00
Tobias Geerinckx-Rice 9fcd4ef30b
gnu: augeas: Use HTTPS home page. 
* gnu/packages/augeas.scm (augeas)[home-page]: Use HTTPS.
 2020-04-16 19:42:20 +02:00
Tobias Geerinckx-Rice 53b655727e
gnu: augeas: Update to 1.12.0. 
* gnu/packages/augeas.scm (augeas): Update to 1.12.0.
 2020-04-16 19:42:20 +02:00
Tobias Geerinckx-Rice 48a8b4658c
gnu: xterm: Update to 353. 
* gnu/packages/xorg.scm (xterm): Update to 353.
 2020-04-16 19:42:19 +02:00
guy fleury iteriteka 7adf6f1be9
gnu: Add the GNU MDK. 
* gnu/packages/education.scm (mdk): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-16 18:33:21 +02:00
R Veera Kumar cc36b7c855
doc: Add dicod-service-type in Dictionary Services. 
* doc/guix.texi (Miscellaneous Services): Add dicod-service-type
in Dictionary Services.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-04-16 18:33:21 +02:00
Ludovic Courtès 82d8959e5d
syscalls: 'readdir*' chooses between the Linux and Hurd code at run time. 
Partly fixes <https://bugs.gnu.org/40574>.
Reported by Jan Nieuwenhuizen <janneke@gnu.org>.

Previously, we'd choose at expansion time whether to use the Hurd or the
Linux variant, taking the cross-compilation target into account.  This
would lead to the wrong decision when (guix build syscalls) is evaluated
while we're cross-compiling to GNU/Hurd.

This is a followup to 1ab9e48339.

* guix/build/syscalls.scm (define-generic-identifier)
(read-dirent-header, %struct-dirent-header, sizeof-dirent-header):
Remove.
(readdir*): Rename to...
(readdir-procedure): ... this, and add parameters.
(readdir*): Define as a call to 'readdir-procedure' as a function of
%HOST-TYPE.
 2020-04-16 18:33:21 +02:00