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Author SHA1 Message Date
Ludovic Courtès
b949f34f31
gnu: Use the non-deprecated TeX packages. 
This commit leaves 'dblatex' and 'texlive-hyperref' as users of
deprecated packages, but these have many dependents.

* gnu/packages/bioinformatics.scm (discrover)[native-inputs]: Use
non-deprecated TeX Live packages.
(velvet)[native-inputs]: Likewise.
* gnu/packages/chez.scm (chez-scheme)[native-inputs]: Likewise.
(chez-web)[native-inputs]: Likewise.
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Likewise.
* gnu/packages/guile-xyz.scm (emacsy)[native-inputs]: Likewise.
* gnu/packages/maths.scm (hypre)[native-inputs]: Likewise.
* gnu/packages/music.scm (lilypond)[native-inputs]: Likewise.
* gnu/packages/ocaml.scm (ocaml-bibtex2html)[native-inputs]: Likewise.
* gnu/packages/plotutils.scm (asymptote)[native-inputs]: Likewise.
* gnu/packages/python-xyz.scm (python-numpy-documentation)[native-inputs]:
Likewise.
(python-matplotlib-documentation)[native-inputs]: Likewise.
(python-ipython-documentation)[native-inputs]: Likewise.
(python-nbconvert)[native-inputs]: Likewise.
(python-pypandoc)[native-inputs]: Likewise.
* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Likewise.
* gnu/packages/tex.scm (texlive-pstool)[propagated-inputs]: Likewise.
(teximpatient)[native-inputs]: Likewise.
(texlive-latex-pgf)[propagated-inputs]: Likewise.
(texlive-beamer)[propagated-inputs]: Likewise.
 2021-09-06 22:02:15 +02:00
Felix Gruber
8bb7cb7bef
gnu: python-gast: Update to 0.5.2. 
* gnu/packages/python-xyz.scm (python-gast): Update to 0.5.2.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-09-05 10:02:18 +02:00
Guillaume Le Vaillant
651e1f17cc
gnu: python-bsddb3: Update to 6.2.9. 
* gnu/packages/python-xyz.scm (python-bsddb3): Update to 6.2.9.
 2021-08-30 11:48:20 +02:00
Guillaume Le Vaillant
d011429b42
gnu: python-chai: Remove Python2 code. 
* gnu/packages/patches/python-chai-drop-python2.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/python-xyz.scm (python-chai)[source]: Use it.
 2021-08-28 23:33:08 +02:00
Guillaume Le Vaillant
16ae9ebd21
gnu: python2-chai: Remove package. 
Nothing depends on it.

* gnu/packages/python-xyz.scm (python2-chai): Remove variable.
 2021-08-28 23:24:19 +02:00
Guillaume Le Vaillant
f7e69b53d6
gnu: python-owslib: Fix build. 
* gnu/packages/python-xyz.scm (python-owslib)[arguments]: Disable
  'sanity-check' phase until dependencies for tests are packaged.
 2021-08-28 21:44:36 +02:00
Guillaume Le Vaillant
89d862493f
gnu: python2-pillow: Disable tests. 
* gnu/packages/python-xyz.scm (python2-pillow)[arguments]: Disable tests.
 2021-08-23 17:51:24 +02:00
Guillaume Le Vaillant
25adb1b6cd
gnu: python2-gamera: Disable wxpython support. 
The package doesn't build when wxpython support is activated, and the only
dependent (didjvu) doesn't need it.

* gnu/packages/python-xyz.scm (python2-gamera)[inputs]: Remove
  python2-wxpython.
  [arguments]: Add 'disable-wx-support' phase.
 2021-08-23 17:41:15 +02:00
Efraim Flashner
06e258c3c0
gnu: python-jupyter-core: Use GUIX_PYTHONPATH. 
* gnu/packages/python-xyz.scm (python-jupyter-core)[arguments]: Adjust
custom 'patch-testsuite phase to use GUIX_PYTHONPATH as the PYTHONPATH.
 2021-08-22 14:08:54 +03:00
Efraim Flashner
c37bd286ea
gnu: python-jsonschema: Update inputs. 
* gnu/packages/python-xyz.scm (python-jsonschema)[propagated-inputs]:
Remove python-importlib-metadata.
(python2-jsonschema)[propagated-inputs]: Add python2-importlib-metadata.
 2021-08-22 14:08:54 +03:00
Efraim Flashner
5987855f21
gnu: python-jsonschema: Fix test suite. 
* gnu/packages/python-xyz.scm (python-jsonschema)[arguments]: Adjust
custom 'check phase to honor #:tests and to set the
JSON_SCHEMA_TEST_SUTE environment variable.
 2021-08-22 14:08:54 +03:00
Mathieu Othacehe
a4da8b83a0
gnu: python-matplotlib: Update to 3.4.3. 
* gnu/packages/python-xyz.scm (python-matplotlib): Update to 3.4.3.
[source]: Remove patch that is applied upstream.
[propagated-inputs]: Add python-certifi.
[inputs]: Add qhull.
[native-inputs]: Add python-wheel.
[arguments]: Extend regexp to match more image comparison tests.
Wrap long lines.
Use system freetype and qhull libraries.
 2021-08-16 13:19:27 +02:00
Mathieu Othacehe
591a3f5714
gnu: bpython: Update to 0.21. 
* gnu/packages/python-xyz.scm (bpython): Update to 0.21.
[propagated-inputs]: Use python-cwcwidth instead of python-wcwidth.
Add python-pyxdg.
[native-inputs]: Add python-tox and python-wheel.
 2021-08-16 09:04:21 +02:00
Mathieu Othacehe
011862f5ff
gnu: Add python-cwcwidth. 
* gnu/packages/python-xyz.scm (python-cwcwidth): New variable.
 2021-08-16 09:04:21 +02:00
Mathieu Othacehe
c39470b115
gnu: python-jedi: Update to 0.18.0-1.1d94494. 
* gnu/packages/python-xyz (python-jedi): Update to 0.18.0-1.1d94494.
[source]: Switch to git-fetch.
[native-inputs]: Add python-django-stubs and python-typeshed.
[arguments]: New unpack-submodule-sources phase. Also do not run pytest tests
that fail with pytest 6 revision.
 2021-08-15 10:47:04 +02:00
Mathieu Othacehe
e24691dce6
gnu: python-parso: Update to 0.8.2. 
* gnu/packages/python-xyz.scm (python-parso): Update to 0.8.2.
 2021-08-15 10:47:04 +02:00
Mathieu Othacehe
1516fd8a4e
gnu: Add python-sgmllib3k. 
* gnu/packages/python-xyz.scm (python-sgmllib3k): New variable.
 2021-08-14 16:36:05 +02:00
Marius Bakke
c4133c43c7
Merge branch 'master' into core-updates-frozen 
Conflicts:
	gnu/packages/algebra.scm
	gnu/packages/games.scm
	gnu/packages/golang.scm
	gnu/packages/kerberos.scm
	gnu/packages/mail.scm
	gnu/packages/python.scm
	gnu/packages/ruby.scm
	gnu/packages/scheme.scm
	gnu/packages/tex.scm
	gnu/packages/tls.scm
	gnu/packages/version-control.scm
 2021-08-12 00:30:27 +02:00
Efraim Flashner
6a29b83423
gnu: python-identify: Honor #:tests in check phase. 
* gnu/packages/python-xyz.scm (python-identify)[arguments]: Honor tests?.
 2021-08-09 20:19:05 +03:00
Efraim Flashner
81698e5099
gnu: python-identify: Fix building. 
* gnu/packages/python-xyz.scm (python-identify)[arguments]: Skip the
'ensure-no-mtimes-pre-1980 phase.
 2021-08-09 20:19:05 +03:00
Efraim Flashner
1d5d115e76
gnu: Remove python-distutils/next. 
* gnu/packages/python-xyz.scm (python-distutils/next): Remove variable.
(python-virtualenv)[propagated-inputs]: Switch from
python-distutils/next to python-distutils.
* gnu/packages/version-control.scm (pre-commit)[inputs]: Same.
 2021-08-09 20:19:05 +03:00
Efraim Flashner
5b6ac91ee4
gnu: Remove python-setuptools-scm/next. 
* gnu/packages/python-xyz.scm (python-setuptools-scm/next): Remove
variable.
(python-pikepdf) [native-inputs]: Swap for python-setuptools-scm.
* gnu/packages/python-compression.scm (python-multivolumefile,
python-bcj-cffi, python-ppmd-cffi, python-p77zr)[native-inputs]: Same.
* gnu/packages/pep.scm (python-pep-adapter)[native-inputs]: Same.
 2021-08-09 17:48:05 +03:00
Efraim Flashner
23d0007e9a
gnu: python-astroid: Update to 2.6.6. 
* gnu/packages/python-xyz.scm (python-astroid): Update to 2.6.6.
[propagated-inputs]: Remove python-six.
[native-inputs]: Remove python-dateutil.
 2021-08-09 15:11:02 +03:00
Efraim Flashner
b8295d2529
gnu: python-jinja2: Update to 3.0.1. 
* gnu/packages/python-xyz.scm (python-jinja2): Update to 3.0.1.
 2021-08-09 13:51:48 +03:00
Efraim Flashner
967999f096
gnu: python-markupsafe: Update to 2.0.1. 
* gnu/packages/python-xyz.scm (python-markupsafe): Update to 2.0.1.
 2021-08-09 13:51:48 +03:00
Efraim Flashner
1122663e4f
gnu: python-itsdangerous: Update to 2.0.1. 
* gnu/packages/python-xyz.scm (python-itsdangerous): Update to 2.0.1.
 2021-08-09 13:51:48 +03:00
Efraim Flashner
70833c2ec8
gnu: python-markupsafe: Honor #:tests in check phase. 
* gnu/pacakges/python-xyz.scm (python-markupsafe)[arguments]: Honor #:tests flag.
 2021-08-09 13:51:30 +03:00
Efraim Flashner
3fe23854eb
gnu: python-soupsieve: Fix building. 
* gnu/packages/python-xyz.scm (python-soupsieve)[arguments]: Skip sanity
check. Convert to gexp.
 2021-08-09 12:14:16 +03:00
Efraim Flashner
79ca85d2ff
gnu: python-pyicu: Update to 2.7.4. 
* gnu/packages/python-xyz.scm (python-pyicu): Update to 2.7.4.
 2021-08-09 12:04:21 +03:00
Efraim Flashner
d418784dbd
gnu: python-docopt: Honor #:tests? in check phase. 
* gnu/packages/python-xyz.scm (python-docopt)[arguments]: In custom
'check phase honor #:tests?.
 2021-08-09 10:02:02 +03:00
Efraim Flashner
23b9dadc1d
gnu: python-docopt: Fix test suite for pytest-6. 
* gnu/packages/python-xyz.scm (python-docopt)[source]: Add patch.
* gnu/packages/patches/python-docopt-pytest6-compat.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
 2021-08-09 10:00:38 +03:00
Marius Bakke
d2e102d4e4
Merge branch 'master' into core-updates-frozen 2021-08-01 23:23:32 +02:00
Marius Bakke
b029be2ee0
Merge branch 'master' into core-updates-frozen 
Conflicts:
	gnu/packages/bioinformatics.scm
	gnu/packages/cmake.scm
	gnu/packages/curl.scm
	gnu/packages/emacs-xyz.scm
	gnu/packages/gpodder.scm
	gnu/packages/music.scm
	gnu/packages/patches/glibc-bootstrap-system.patch
	gnu/packages/python-xyz.scm
	gnu/packages/shells.scm
	gnu/packages/statistics.scm
 2021-07-29 22:34:57 +02:00
Nicolas Goaziou
74dad2c75a
gnu: python-pikepdf: Update to 2.16.1. 
* gnu/packages/python-xyz.scm (python-pikepdf): Update to 2.16.1.
 2021-07-29 10:28:08 +02:00
Ricardo Wurmus
41431282e2
gnu: Add python-zict. 
* gnu/packages/python-xyz.scm (python-zict): New variable.
 2021-07-28 20:31:06 +02:00
Ricardo Wurmus
45ee09dc96
gnu: Add python-heapdict. 
* gnu/packages/python-xyz.scm (python-heapdict): New variable.
 2021-07-28 20:31:06 +02:00
Ricardo Wurmus
242221e380
gnu: python-dask: Update to 2021.7.1. 
* gnu/packages/python-xyz.scm (python-dask): Update to 2021.7.1.
[arguments]: Do not skip test_shuffle.
 2021-07-28 20:31:05 +02:00
Ricardo Wurmus
f01d4b197a
gnu: python-partd: Update to 1.2.0. 
* gnu/packages/python-xyz.scm (python-partd): Update to 1.2.0.
 2021-07-28 20:31:05 +02:00
Ricardo Wurmus
27c6cab2c6
gnu: python-numexpr: Update to 2.7.3. 
* gnu/packages/python-xyz.scm (python-numexpr): Update to 2.7.3.
 2021-07-28 20:31:05 +02:00
Ricardo Wurmus
145296dbcb
gnu: python-cloudpickle: Update to 1.6.0. 
* gnu/packages/python-xyz.scm (python-cloudpickle-testpkg): New variable.
(python-cloudpickle): Update to 1.6.0; inherit from
python-cloudpickle-testpkg.
[source]: Fetch from git repository.
[native-inputs]: Add python-cloudpickle-testpkg; replace python-tornado with
python-tornado-6.
 2021-07-28 20:31:05 +02:00
Ricardo Wurmus
2422fbf6b2
gnu: python2-cloudpickle: Override version, source, and native-inputs. 
* gnu/packages/python-xyz.scm (python2-cloudpickle)[version]: Explicitly set
to 1.3.0.
[source]: Copy from base package.
[native-inputs]: Do not inherit; copy.
 2021-07-28 20:31:05 +02:00
Nicolas Goaziou
b07c7f0da6
gnu: python-pikepdf: Update to 2.16.0. 
* gnu/packages/python-xyz.scm (python-pikepdf): Update to 2.16.0.
 2021-07-27 21:35:52 +02:00
Eric Bavier
f71b91a22b
gnu: Add python-pebble. 
* gnu/packages/python-xyz.scm (python-pebble): New variable.
 2021-07-30 08:13:38 -05:00
Maxim Cournoyer
e81228166e
gnu: web: Move libyaml and libcyaml to (gnu packages serialization). 
Files to be adjusted were searched with the following command:

 $ git ls-files | xargs grep -l -E ',libc?yaml' | \
       xargs grep -L '(gnu packages serialization)'

* gnu/packages/web.scm (libyaml, libyaml+static, libcyaml): Move to...
* gnu/packages/serialization.scm: ... here.
 2021-07-29 22:03:33 -04:00
Efraim Flashner
a88cf96480
gnu: python-networkx: Update to 2.6.2. 
* gnu/packages/python-xyz.scm (python-networkx): Update to 2.6.2.
 2021-08-08 13:52:38 +03:00
Ben Sturmfels
79fa1fbe23
gnu: Remove python-fudge. 
Remove unused dependency of previously removed fabric package.

* gnu/packages/python-xyz.scm (python-fudge): Remove variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-08-05 11:19:38 +03:00
Ludovic Courtès
9b80df58d0
gnu: Add python-peachpy. 
* gnu/packages/python-xyz.scm (python-peachpy): New variable.
 2021-08-04 17:22:18 +02:00
Ludovic Courtès
14428aa07f
gnu: Add python-opcodes. 
* gnu/packages/python-xyz.scm (python-opcodes): New variable.
 2021-08-04 17:22:18 +02:00
Nicolas Goaziou
16f0bdf5f0
gnu: python-pikepdf: Update to 2.15.1. 
* gnu/packages/python-xyz.scm (python-pikepdf): Update to 2.15.1.
 2021-07-26 09:33:38 +02:00
Ludovic Courtès
377e9453ca
gnu: Use 'search-input-file' when looking for *.so and *.a. 
* gnu/packages/bioinformatics.scm (sailfish)[arguments]: Use
'search-input-file' when looking for *.a and *.so.
* gnu/packages/emulators.scm (dolphin-emu): Likewise.
* gnu/packages/engineering.scm (lepton-eda): Likewise.
(pcb): Likewise.
* gnu/packages/golang.scm (go-1.4): Likewise.
(go-1.14): Likewise.
* gnu/packages/haskell.scm (ghc-7): Likewise.
* gnu/packages/irods.scm (irods): Likewise.
* gnu/packages/language.scm (python2-tegaki-pygtk): Likewise.
* gnu/packages/lisp-xyz.scm (sbcl-lzlib): Likewise.
(sbcl-cl-gobject-introspection): Likewise.
(sbcl-cl-ana): Likewise.
(sbcl-cl-libuv): Likewise.
(sbcl-cl-async): Likewise.
(sbcl-mcclim): Likewise.
(sbcl-zstd): Likewise.
(sbcl-cl-opengl): Likewise.
(sbcl-lev): Likewise.
(sbcl-cl-glfw3): Likewise.
* gnu/packages/machine-learning.scm (tensorflow): Likewise.
* gnu/packages/messaging.scm (utox): Likewise.
* gnu/packages/mpi.scm (java-openmpi): Likewise.
* gnu/packages/music.scm (jack-select): Likewise.
* gnu/packages/pascal.scm (fpc): Likewise.
* gnu/packages/python-crypto.scm (python-libnacl): Likewise.
* gnu/packages/python-xyz.scm (python-cairocffi): Likewise.
(python-pyev): Likewise.
(python-pytidylib): Likewise.
* gnu/packages/radio.scm (unixcw): Likewise.
* gnu/packages/rust.scm (rust-1.32): Likewise.
* gnu/packages/security-token.scm (opensc): Likewise.
(python-pyscard): Likewise.
* gnu/packages/selinux.scm (python-setools): Likewise.
* gnu/packages/spice.scm (libcacard): Likewise.
* gnu/packages/telephony.scm (libtgvoip): Likewise.
 2021-07-24 16:23:23 +02:00