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65166 Commits

Author SHA1 Message Date
Ricardo Wurmus
6d0a3dc4bc gnu: python-notebook: Update inputs. 
* gnu/packages/python-xyz.scm (python-notebook)[propagated-inputs]: Add
python-argon2-cffi, python-ipykernel, python-ipython-genutils, python-jinja2,
python-jupyter-client, python-pyzmq, python-tornado-6, and python-traitlets.
[native-inputs]: Remove python-nose and python-sphinx; add python-coverage,
python-nbval, python-pytest, python-pytest-cov, and
python-requests-unixsocket.
[arguments]: Use pytest instead of nosetests.
 2021-04-13 13:41:17 +02:00
Ricardo Wurmus
e9008a66ea gnu: python-notebook: Update to 6.3.0. 
* gnu/packages/python-xyz.scm (python-notebook): Update to 6.3.0.
 2021-04-13 13:41:17 +02:00
Ricardo Wurmus
a7a92c00f4 gnu: python-widgetsnbextension: Add missing inputs. 
* gnu/packages/python-xyz.scm (python-widgetsnbextension)[propagated-inputs]:
Add python-argon2-cffi and python-terminado.
 2021-04-13 13:41:17 +02:00
Ricardo Wurmus
02746ead49 gnu: python-ipykernel: Update to 5.5.3. 
* gnu/packages/python-xyz.scm (python-ipykernel): Update to 5.5.3.
 2021-04-13 13:41:17 +02:00
Ricardo Wurmus
b1415bf089 gnu: python-jupyter-client: Update to 6.1.12. 
* gnu/packages/python-xyz.scm (python-jupyter-client): Update to 6.1.12.
[propagated-inputs]: Add python-dateutil and python-tornado-6.
[native-inputs]: Add python-pytest.
 2021-04-13 13:41:17 +02:00
Ricardo Wurmus
2a12cbaaab gnu: python-jupyter-core: Update to 4.7.1. 
* gnu/packages/python-xyz.scm (python-jupyter-core): Update to 4.7.1.
 2021-04-13 13:41:16 +02:00
Ricardo Wurmus
95f25c9b13 gnu: python-terminado: Update to 0.9.4. 
* gnu/packages/python-web.scm (python-terminado): Update to 0.9.4.
[propagated-inputs]: Replace python-tornado with python-tornado-6.
[native-inputs]: Replace python-nose with python-pytest.
[home-page]: Follow redirect.
[arguments]: Update check phase.
 2021-04-13 13:41:16 +02:00
Ryan Prior
85788dd64d gnu: esbuild: Update to 0.11.9. 
* gnu/packages/web.scm (esbuild): Update to 0.11.9.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-04-13 14:23:47 +03:00
Ryan Prior
504a525d37 gnu: visidata: Update to 2.4. 
* gnu/packages/visidata.scm (visidata): Update to 2.4.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-04-13 14:23:40 +03:00
Morgan Smith
bad0654d4f gnu: gnu-standards: Update to 2020-11-25. 
* gnu/packages/gnu-doc.scm (gnu-standards): Update to 2020-11-25.
[source]: Make file-name more descriptive. Use version variable for
revision.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-04-13 14:19:36 +03:00
Paul Garlick
995f685e4d gnu: Add texlive-xcharter. 
* gnu/packages/tex.scm: New variable.
 2021-04-13 11:33:49 +01:00
Ricardo Wurmus
1bbed20332 gnu: guile-picture-language: Update to 0.0.1-5.a1322bf. 
* gnu/packages/guile-xyz.scm (guile-picture-language): Update to
0.0.1-5.a1322bf.
 2021-04-12 21:51:38 +02:00
Philip McGrath
834aa48504 gnu: racket: Don't inject store paths into Racket files. 
Apparently, during grafting, Guix can somehow mangle compiled
Racket CS files (.zo) such that Racket will refuse to load them.
(Maybe it has something to do with compression?)
So, we stop patching Racket sources with absolute paths to store
files (i.e. for foreign libraries to dlopen).
Instead, we put them in a data file that doesn't get compiled or,
in one case, embed it in C.

Fixes https://issues.guix.gnu.org/47064

* gnu/packages/patches/racket-sh-via-rktio.patch: New file.
Adds a special case at the C level, controlled by a preprocessor macro,
to handle attempts to execute "/bin/sh".
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/scheme.scm (racket)[source](patches): Apply it.
(racket)[arguments](#:configure-flags): Add the CPP flag to enable it.
(racket)[arguments](#:modules): Use srfi-1.
(racket)[arguments](#:phases): Remove 'patch-/bin/sh and 'pre-configure.
Change 'pre-configure-minimal to just change directory.
Add 'patch-config.rktd-lib-search-dirs after 'build and before 'install
to configure Racket's "lib-search-dirs".
(racket, racket-minimal)[inputs]: Add bash-minimal as an explicit input.
(racket-minimal)[source]: Adjust to inherit patches from racket.
(racket-minimal)[arguments]: Inherit from racket: changes no longer needed.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-04-12 18:42:22 +02:00
hli
eb8da54170 gnu: Add r-txdb-dmelanogaster-ucsc-dm6-ensgene. 
* gnu/packages/bioconductor.scm (r-txdb-dmelanogaster-ucsc-dm6-ensgene):
New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-04-12 18:25:40 +02:00
Adam Kandur
c1ed3b048d gnu: Add cl-bodge-queue. 
* gnu/packages/lisp-xyz.scm (sbcl-bodge-queue, cl-bodge-queue,
  ecl-bodge-queue): New variables.

Co-authored-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-04-12 17:06:31 +02:00
Nicolas Goaziou
7b04bdaba8 gnu: hydrogen: Update to 1.0.2. 
* gnu/packages/music.scm (hydrogen): Update to 1.0.2.
 2021-04-12 16:06:51 +02:00
Ekaitz Zarraga
f53ec9d99b gnu: Add openvdb. 
* gnu/packages/graphics.scm (openvdb): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-04-12 16:03:51 +02:00
Paul Garlick
e698843442 gnu: Add texlive-newtx. 
* gnu/packages/tex.scm: New variable.
 2021-04-12 14:21:23 +01:00
Julien Lepiller
ac3bf4e4da gnu: java-eclipse-jetty-util: Update to 9.4.39 [security fixes]. 
Fixes CVE-2021-28165 - jetty server high CPU when client send data length >
17408, CVE-2021-28164 - Normalize ambiguous URIs and CVE-2021-28163 - Exclude
webapps directory from deployment scan.

* gnu/packages/java.scm (java-eclipse-jetty-util): Update to 9.4.39.
(java-eclipse-jetty-util-ajax): New variable.
(java-eclipse-jetty-util, java-eclipse-jetty-io, java-eclipse-jetty-http)
(java-eclipse-jetty-jmx, java-eclipse-jetty-server)
(java-eclipse-jetty-security, java-eclipse-jetty-servlet)
(java-eclipse-jetty-xml, java-eclipse-jetty-webapp): Disable tests.
[native-inputs]: Remove test dependencies.
 2021-04-12 15:12:09 +02:00
Efraim Flashner
29f205f7e0 gnu: hangups: Run test suite. 
* gnu/packages/messaging.scm (hangups)[arguments]: Use custom 'check
phase.
 2021-04-12 15:16:58 +03:00
Efraim Flashner
2323a38b01 gnu: hangups: Loosen version restrictions further. 
* gnu/packages/messaging.scm (hangups)[arguments]: Adjust custom
'relax-dependencies phase to allow more dependency versions.
 2021-04-12 15:16:58 +03:00
Ekaitz Zarraga
5414617120 gnu: python-mechanicalsoup: Update to 1.0.0. 
* gnu/packages/python-web.scm (python-mechanicalsoup): Update to
1.0.0.
[arguments]: Enable tests.
[native-inputs]: Add python-pytest-flake8, python-pytest-httpbin,
python-pytest-cov, python-pytest-mock, python-pytest-runner,
python-requests-mock.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-04-12 15:16:57 +03:00
Leo Prikler
331666862c gnu: renpy: Update to 7.4.4. 
* gnu/packages/game-development.scm (python2-renpy): Update to 7.4.4.
(python2-pygame-sdl2)[renpy-version]: Likewise.
 2021-04-12 13:13:11 +02:00
methuselah-0
f890bf6392 gnu: nginx: Enable stream module. 
* gnu/packages/web.scm (nginx)[arguments]: Add --with-stream option in the 'configure phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-04-12 12:51:15 +02:00
methuselah-0
b9986cac3e gnu: Add prips. 
gnu/packages/admin.scm (prips): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-04-12 12:51:11 +02:00
Ludovic Courtès
f67663d669 gnu: blis: Add deprecated aliases. 
Add deprecated aliases for packages removed in the parent commit.

* gnu/packages/maths.scm (blis-sandybridge, blis-haswell, blis-knl): New
variables.
 2021-04-12 12:38:01 +02:00
Philip McGrath
969adb235e gnu: blis: Update to 0.8.1. 
* gnu/packages/maths.scm (make-blis): Remove internal function.
Inline into ...
(bliss): ... this variable. Update to 0.8.1.
[native-inputs]: Add "python" and "perl".
[arguments]: Adjust 'configure' phase to take advantage of new support
for "configuration families" with runtime hardware detection. Select
configuration automatically based on target systems, and allow
"--blis-config=" in #:configure-flags to override the default.
When building for x86_64, include all supported microarchetecture
specializations. Add "--enable-verbose-make" configure flag for better
build logs. Stop ignoring other flags from #:configure-flags.
Remove explicit #:substitutable? argument: the package is now always
substitutable. Add (srfi srfi-1) to #:modules.
(blis/x86_64): Remove internal macro.
(blis-sandybridge): Remove package: included in 'blis'.
(blis-haswell): Remove package: included in 'blis'.
(blis-knl): Remove package: included in 'blis'.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-04-12 12:38:01 +02:00
Guillaume Le Vaillant
05aa5f9f39 gnu: monero-gui: Update to 0.17.2.0. 
* gnu/packages/finance.scm (monero-gui): Update to 0.17.2.0.
 2021-04-12 11:17:59 +02:00
Guillaume Le Vaillant
3c1cfd7d32 gnu: monero: Update to 0.17.2.0. 
* gnu/packages/finance.scm (monero): Update to 0.17.2.0.
 2021-04-12 11:17:59 +02:00
Morgan Smith
8799369983 gnu: newlib-nano: Fix nano lib and header paths. 
* gnu/packages/embedded.scm (newlib-nano-arm-none-eabi)[arguments]: Hard link
library files from *.a to *_nano.a. Hard link newlib.h to a common location.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-04-12 11:22:21 +03:00
Guillaume Le Vaillant
c901ec27d7 gnu: electron-cash: Add missing input. 
Fixes <https://bugs.gnu.org/47654>.

* gnu/packages/finance.scm (electron-cash)[inputs]: Add python-pathvalidate.
 2021-04-12 10:16:07 +02:00
Guillaume Le Vaillant
5c1f673554 gnu: Add python-pathvalidate. 
* gnu/packages/python-xyz.scm (python-pathvalidate): New variable.
 2021-04-12 10:12:09 +02:00
Guillaume Le Vaillant
bceca1ff58 gnu: Add python-allpairspy. 
* gnu/packages/python-check.scm (python-allpairspy): New variable.
 2021-04-12 09:50:54 +02:00
Leo Famulari
ed3ef756f5 gnu: Syncthing: Update to 1.15.1 [fixes CVE-2021-21404]. 
* gnu/packages/syncthing.scm (syncthing): Update to 1.15.1.
[source]: Use bundled dependencies.
[inputs]: Remove field.
[arguments]: Adjust the custom 'build' and 'install' phases for 1.15.1.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2021-04-11 21:52:34 -04:00
Tobias Geerinckx-Rice
f5898781e2 gnu: python-cython: Update to 0.29.22. 
* gnu/packages/python-xyz.scm (python-cython): Update to 0.29.22.
 2021-04-12 01:24:46 +02:00
Tobias Geerinckx-Rice
9b34c9167b gnu: python-fastimport: Update to 0.9.9. 
* gnu/packages/python-xyz.scm (python-fastimport): Update to 0.9.9.
 2021-04-12 00:51:49 +02:00
Tobias Geerinckx-Rice
e737e74ec0 gnu: minetest: Update to 5.4.1. 
* gnu/packages/games.scm (minetest, minetest-data): Update to 5.4.1.
 2021-04-12 00:24:02 +02:00
Tobias Geerinckx-Rice
1135b347db gnu: ghq: Update to 1.1.7. 
* gnu/packages/version-control.scm (ghq): Update to 1.1.7.
 2021-04-12 00:03:15 +02:00
Tobias Geerinckx-Rice
5661cdce25 gnu: lagrange: Update to 1.3.2. 
* gnu/packages/web-browsers.scm (lagrange): Update to 1.3.2.
 2021-04-11 23:59:37 +02:00
Tobias Geerinckx-Rice
40707f2e0b gnu: irssi: Update to 1.2.3. 
* gnu/packages/irc.scm (irssi): Update to 1.2.3.
 2021-04-11 23:55:17 +02:00
Tobias Geerinckx-Rice
9d7577d5d8 gnu: edgar: Update to 1.34. 
* gnu/packages/games.scm (edgar): Update to 1.34.
 2021-04-11 23:46:30 +02:00
Tobias Geerinckx-Rice
d286ea6d5b gnu: libime: Update to 1.0.6. 
* gnu/packages/fcitx5.scm (libime): Update to 1.0.6.
 2021-04-11 23:39:17 +02:00
Tobias Geerinckx-Rice
4ebf6ccb3e gnu: acpica: Update to 20210331. 
* gnu/packages/admin.scm (acpica): Update to 20210331.
 2021-04-11 18:07:40 +02:00
Tobias Geerinckx-Rice
50ad53c711 gnu: python-skyfield: Update to 1.38. 
* gnu/packages/astronomy.scm (python-skyfield): Update to 1.38.
 2021-04-11 18:07:40 +02:00
Tobias Geerinckx-Rice
96feb7515e gnu: librsync: Update to 2.3.2. 
* gnu/packages/rsync.scm (librsync): Update to 2.3.2.
 2021-04-11 18:07:39 +02:00
Hartmut Goebel
03e80cf422 gnu: Add python-pysctp. 
* gnu/packages/networking.scm(python-pysctp): New variable.
 2021-04-11 17:02:30 +02:00
Hartmut Goebel
3281ba6eae gnu: lksctp-tools: Fix build of include file. 
* gnu/packages/patches/lksctp-tools-1.0.18-fix-header-file-name.patch:
  New file.
* gnu/local.mk[patches]: Add it.
* gnu/packages/networking.scm(/lksctp-tools)[source]: Use this patch.
 2021-04-11 17:02:30 +02:00
Pierre Langlois
fca8ef0d76 gnu: gpodder: Update to 3.10.18. 
* gnu/packages/gpodder.scm (gpodder): Update to 3.10.18.
[native-inputs]: Add python-pytest, python-pytest-cov,
python-pytest-httpserver and which.
[inputs]: Add python-requests.
 2021-04-11 15:54:02 +01:00
Pierre Langlois
754a7608cc gnu: Add python-pytest-httpserver. 
* gnu/packages/check.scm (python-pytest-httpserver): New variable.
 2021-04-11 15:53:57 +01:00
Nicolas Goaziou
9d92819dba gnu: scintilla: Update to 5.0.1. 
* gnu/packages/text-editors.scm (scintilla): Update to 5.0.1.
 2021-04-11 14:42:25 +02:00