| Commit message (Expand) | Author | Age | Files | Lines |
|---|
| * | gnu: snakemake: Add runtime dependencies.•••* gnu/packages/python.scm (snakemake)[propagated-inputs]: Add python-wrapt and
python-requests.
| Ricardo Wurmus | 2017-03-20 | 1 | -0/+3 |
| * | gnu: Add python-pylint.•••* gnu/packages/python.scm (python-pylint, python2-pylint): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+59 |
| * | gnu: Add python2-coverage-test-runner.•••* gnu/packages/python.scm (python2-coverage-test-runner): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+31 |
| * | gnu: Add python-configparser.•••* gnu/packages/python.scm (python-configparser, python2-configparser): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+25 |
| * | gnu: Add python2-backports-functools-lru-cache.•••* gnu/packages/python.scm (python2-backports-functools-lru-cache): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+23 |
| * | gnu: Add python-isort.•••* gnu/packages/python.scm (python-isort, python2-isort): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+29 |
| * | gnu: Add python-astroid.•••* gnu/packages/python.scm (python-astroid, python2-astroid): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-20 | 1 | -0/+42 |
| * | gnu: snakemake: Update to 3.11.2.•••* gnu/packages/python.scm (snakemake): Update to 3.11.2.
| Ricardo Wurmus | 2017-03-17 | 1 | -2/+2 |
| * | gnu: r: Rename to r-minimal.•••* gnu/packages/statistics.scm (r): Rename to...
(r-minimal): ...this new variable.
(r-with-recommended-packages): Rename to...
(r): ...this.
* guix/build-system/r.scm (default-r): Reference r-minimal.
* gnu/packages/emacs.scm (emacs-ess)[inputs],
gnu/packages/machine-learning.scm (shogun)[inputs],
gnu/packages/python.scm (python-rpy2)[inputs],
gnu/packages/bioinformatics.scm (ribotaper)[inputs],
(couger)[propagated-inputs],
(roary)[inputs],
(rsem)[inputs],
(rcas-web)[inputs]: Change "r" to "r-minimal".
| Ricardo Wurmus | 2017-03-17 | 1 | -1/+1 |
| * | gnu: r: Do not build recommended packages.•••* gnu/packages/statistics.scm (r)[arguments]: Rename phase
"build-recommended-packages-reproducibly" to "build-reproducibly"; add
configure flag "--without-recommended-packages".
* guix/import/cran.scm (default-r-packages): Remove recommended packages.
* gnu/packages/python.scm (python-rpy2)[inputs]: Add r-survival.
* gnu/packages/bioinformatics.scm (r-ape)[propagated-inputs]: Add r-lattice
and r-nlme.
(r-vegan)[propagated-inputs]: Add r-mass.
(r-genefilter)[propagated-inputs]: Add r-survival.
(r-grohmm)[propagated-inputs]: Add r-mass.
(r-bioccheck)[propagated-inputs]: Add r-codetools.
(r-summarizedexperiment)[propagated-inputs]: Add r-matrix.
(r-topgo)[propagated-inputs]: Add r-lattice.
(r-sva)[propagated-inputs]: Add r-mgcv.
(r-raremetals2)[propagated-inputs]: Add r-mass.
(r-vsn)[propagated-inputs]: Add r-lattice.
(r-pcamethods)[propagated-inputs]: Add r-mass.
* gnu/packages/bioinformatics.scm (r-ggplot2)[propagated-inputs]: Add r-mass.
(r-locfit)[propagated-inputs]: Add r-lattice.
(r-coda)[propagated-inputs]: Add r-lattice.
(r-irlba)[propagated-inputs]: Add r-matrix.
(r-glmnet)[propagated-inputs]: Add r-matrix.
(r-e1071)[propagated-inputs]: Add r-class.
(r-spams)[propagated-inputs]: Add r-lattice and r-matrix.
(r-hmisc)[propagated-inputs]: Add r-cluster, r-foreign, r-lattice, r-nnet, and
r-rpart.
(r-zoo)[propagated-inputs]: Add r-lattice.
(r-mixtools)[propagated-inputs]: Add r-boot and r-mass.
(r-flexmix)[propagated-inputs]: Add r-lattice and r-nnet.
(r-prabclus)[propagated-inputs]: Add r-mass.
(r-fpc)[propagated-inputs]: Add r-class, r-cluster, and r-mass.
(r-rcppeigen)[propagated-inputs]: Add r-matrix.
(r-matrixmodels)[propagated-inputs]: Add r-matrix.
(r-lme4)[propagated-inputs]: Add r-mass and r-nlme.
(r-pbkrtest)[propagated-inputs]: Add r-mass and r-matrix.
(r-car)[propagated-inputs]: Add r-mass, r-mgcv, and r-nnet.
(r-tclust)[propagated-inputs]: Add r-cluster.
| Ricardo Wurmus | 2017-03-17 | 1 | -1/+2 |
| * | gnu: python-publicsuffix2: Update to 2.20160818.•••* gnu/packages/python.scm (python-publicsuffix2): Update to 2.20160818.
| Tobias Geerinckx-Rice | 2017-03-16 | 1 | -2/+2 |
| * | gnu: awscli: Update to 1.11.63.•••* gnu/packages/python.scm (awscli): Update to 1.11.63.
| Tobias Geerinckx-Rice | 2017-03-16 | 1 | -2/+2 |
| * | gnu: python-botocore: Update to 1.5.26.•••* gnu/packages/python.scm (python-botocore): Update to 1.5.26.
| Tobias Geerinckx-Rice | 2017-03-16 | 1 | -2/+2 |
| * | gnu: python-ptyprocess: Update to 0.5.1.•••* gnu/packages/python.scm (python-ptyprocess): Update to 0.5.1.
| Tobias Geerinckx-Rice | 2017-03-16 | 1 | -2/+2 |
| * | gnu: python-waf: Update to 1.9.8.•••* gnu/packages/python.scm (python-waf, python2-waf): Update to 1.9.8.
[home-page]: Use https.
| Efraim Flashner | 2017-03-15 | 1 | -3/+3 |
| * | gnu: python-parsedatetime: Update to 2.3.•••Version 2.1 was apparently time-sensitive and started failing like this:
======================================================================
FAIL: testFloat (tests.TestDelta.test)
----------------------------------------------------------------------
Traceback (most recent call last):
File "/tmp/guix-build-python2-parsedatetime-2.1.drv-0/parsedatetime-2.1/tests/TestDelta.py", line 64, in testFloat
self.cal.parse('1.4 months ago', self.source), months=-1.4)
File "/tmp/guix-build-python2-parsedatetime-2.1.drv-0/parsedatetime-2.1/tests/TestDelta.py", line 37, in assertDelta
self.assertTrue(diff < 0.05, '%s is not less than 0.05' % diff)
AssertionError: 0.0666666666667 is not less than 0.05
----------------------------------------------------------------------
* gnu/packages/python.scm (python-parsedatetime): Update to 2.3.
[native-inputs]: Add PYTHON-PYTEST and PYTHON-PYTEST-RUNNER.
[propagated-inputs]: New field.
| Ludovic Courtès | 2017-03-14 | 1 | -4/+8 |
| * | gnu: Add python-flask-login.•••* gnu/packages/python.scm (python-flask-login, python2-flask-login): New
variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| humanitiesNerd | 2017-03-13 | 1 | -0/+29 |
| * | gnu: Add python-flask-htmlmin.•••* gnu/packages/python.scm (python-flask-htmlmin, python2-flask-htmlmin): New
variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| humanitiesNerd | 2017-03-13 | 1 | -0/+24 |
| * | gnu: Add python-htmlmin.•••* gnu/packages/python.scm (python-htmlmin, python2-htmlmin): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| humanitiesNerd | 2017-03-13 | 1 | -0/+24 |
| * | gnu: Add python2-larch.•••* gnu/packages/python.scm (python2-larch): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-09 | 1 | -0/+31 |
| * | gnu: Add python2-tracing.•••* gnu/packages/python.scm (python2-tracing): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-09 | 1 | -0/+26 |
| * | gnu: Add python2-ttystatus.•••* gnu/packages/python.scm (python2-ttystatus): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-09 | 1 | -0/+25 |
| * | gnu: Add python2-cliapp.•••* gnu/packages/python.scm (python2-cliapp): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Arun Isaac | 2017-03-09 | 1 | -1/+28 |
| * | gnu: python-numpy-documentation: Use full git commit hash in submodule.•••* gnu/packages/python.scm (python-numpy-documentation,
python2-numpy-documentation)[native-inputs]: Update hash of
SCIPY-SPHINX-THEME. Fix indentation of a line.
| Marius Bakke | 2017-03-09 | 1 | -2/+2 |
| * | gnu: Remove obsolete numpy comment.•••* gnu/packages/python.scm: Remove comment.
| Marius Bakke | 2017-03-09 | 1 | -2/+0 |
| * | gnu: python-pandas: Fix build on 32-bit.•••* gnu/packages/patches/python-pandas-skip-failing-tests.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/python.scm (python-pandas, python2-pandas): Use it.
| Marius Bakke | 2017-03-08 | 1 | -1/+3 |
| * | gnu: Add python-faker.•••* gnu/packages/patches/python-fake-factory-fix-build-32bit.patch: Adjust
paths. Also rename to ...
* gnu/packages/patches/python-faker-fix-build-32bit.patch: ... this.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/python.scm (python-faker, python2-faker): New variables.
(python-fake-factory)[properties]: Superseded by PYTHON-FAKER.
(python2-fake-factory)[properties]: Superseded by PYTHON2-FAKER.
(python-orator, python2-orator)[propagated-inputs]: Replace
PYTHON-FAKE-FACTORY with PYTHON-FAKER.
| Marius Bakke | 2017-03-08 | 1 | -2/+53 |
| * | gnu: python-matplotlib-documentation: Fix build.•••* gnu/packages/python.scm (python-matplotlib-documentation)[native-inputs]:
Add python-mock and graphviz.
[arguments]: Use separate build and install phases; correctly set latex paper size.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Thomas Danckaert | 2017-03-08 | 1 | -30/+31 |
| * | gnu: python-rpy2: Propagate python2-singledispatch.•••* gnu/packages/python.scm (python-rp2)[native-inputs]: Rename to...
[propagated-inputs]: ... this.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Pjotr Prins | 2017-03-07 | 1 | -2/+2 |
| * | gnu: python-colorspacious: Run tests.•••* gnu/packages/python.scm (python-colorspacious,
python2-colorspacious)[native-inputs]: Add python-nose.
[arguments]: Add custom 'check phase which runs nosetests.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Thomas Danckaert | 2017-03-06 | 1 | -0/+8 |
| * | gnu: Remove python-sphinx-1.2.3.•••* gnu/packages/python.scm (python-sphinx-1.2.3, python2-sphinx-1.2.3): Remove variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Thomas Danckaert | 2017-03-06 | 1 | -18/+0 |
| * | gnu: python-pandas: Update to 0.19.2.•••* gnu/packages/python.scm (python-pandas, python2-pandas): Update to 0.19.2.
[source]: Use 'pypi-uri'.
| Marius Bakke | 2017-03-06 | 1 | -6/+3 |
| * | gnu: python-matplotlib: Update to 2.0.0.•••* gnu/packages/python.scm (python-matplotlib, python2-matplotlib): Update to
2.0.0.
[source]: Remove Tk backend patch, use Github instead of Sourceforge.
[outputs]: Remove "doc" output.
[inputs]: Add python-pyqt.
[propagated-inputs]: Add python-cycler.
[native-inputs]: Remove python-sphinx, python-numpydoc, texlive and texinfo.
(python2-matplotlib)[native-inputs]: Add python2-functools32 and
python2-subprocess32.
(python-matplotlib-documentation, python2-matplotlib-documentation): New
variables.
* gnu/packages/patches/matplotlib-setupext-tk.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Thomas Danckaert | 2017-03-06 | 1 | -51/+69 |
| * | gnu: Add python2-subprocess32.•••* gnu/packages/python.scm (python2-subprocess32): New variable.
* gnu/packages/patches/python2-subprocess32-disable-input-test.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
| Marius Bakke | 2017-03-06 | 1 | -0/+41 |
| * | gnu: python-numpy: Update to 1.12.0.•••* gnu/packages/python.scm (python-numpy): Update to 1.12.0.
[source]: Use github instead of sourceforge.
[native-inputs]: Add python-cython.
To simplify the handling of dependency cycles (numpy documentation depends
on matplotlib, which depends on numpy), we split out the documentation into
a separate package:
(python-numpy-bootstrap, python2-numpy-bootstrap): Remove variables.
(python-numpy-documentation, python2-numpy-documentation): New variables.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Thomas Danckaert | 2017-03-06 | 1 | -66/+82 |
| * | gnu: python-setuptools-scm: Update to 1.15.0.•••* gnu/packages/python.scm (python-setuptools-scm): Update to 1.15.0.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| Troy Sankey | 2017-03-06 | 1 | -2/+2 |
| * | gnu: python2-backports-shutil-get-terminal-size: Enable tests.•••* gnu/packages/python.scm
(python2-backports-shutil-get-terminal-size)[arguments]: Replace 'check' phase
with custom command.
[native-inputs]: Add PYTHON2-PYTEST.
| Marius Bakke | 2017-03-06 | 1 | -1/+8 |
| * | gnu: python-ipython: Update to 5.2.2.•••* gnu/packages/python.scm (python-ipython): Update to 5.2.2.
[propagated-inputs]: Add pyhon-prompt-toolkit and python-nbformat.
(python2-ipython) [arguments]: Enable tests.
[propagated-inputs]: Add python2-backports-shutil-get-terminal-size.
[native-inputs]: Add graphviz.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| Thomas Danckaert | 2017-03-06 | 1 | -9/+16 |
| * | gnu: python-scipy: Update to 0.18.1.•••* gnu/packages/python.scm (python-scipy): Update to 0.18.1.
[source]: Use github instead of sourceforge.
[native-inputs]: Add python-cython.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| Thomas Danckaert | 2017-03-06 | 1 | -56/+48 |
| * | gnu: python-testpath: Fix library location for python2 version.•••* gnu/packages/python.scm (python-testpath)[arguments]: Install module in the proper
"lib/pythonx.y" location for all Python versions.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| Thomas Danckaert | 2017-03-06 | 1 | -10/+16 |
| * | gnu: Add python-colorspacious.•••* gnu/packages/python.scm (python-colorspacious, python2-colorspacious): New
variables.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| Thomas Danckaert | 2017-03-06 | 1 | -0/+24 |
| * | gnu: Add python2-backports-shutil-get-terminal-size.•••* gnu/packages/python.scm (python2-backports-shutil-get-terminal-size): New
variable.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| Thomas Danckaert | 2017-03-06 | 1 | -1/+24 |
| * | Merge branch 'python-tests' | Marius Bakke | 2017-03-03 | 1 | -262/+777 |
| |\ |
|
| | * | Merge branch 'master' into python-tests | Marius Bakke | 2017-02-27 | 1 | -18/+71 |
| | |\ |
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| | * | | gnu: python-fake-factory: Fix build on 32bit.•••* gnu/packages/patches/python-fake-factory-fix-build-32bit.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/python.scm (python-fake-factory, python2-fake-factory)[source]:
Use it.
| Marius Bakke | 2017-02-24 | 1 | -1/+4 |
| | * | | gnu: python-pyicu: Fix build.•••* gnu/packages/python.scm (python-pyicu, python2-pyicu)[arguments]: New
field. Add phase to delete locale-dependent test.
| Marius Bakke | 2017-02-19 | 1 | -0/+9 |
| | * | | gnu: python-scikit-learn: Fix test failure.•••* gnu/packages/python.scm (python-scikit-learn,
python2-scikit-learn)[arguments]: Use 'modify-phases'. Move 'check' phase
after 'install' and incorporate 'set-HOME' phase.
| Marius Bakke | 2017-02-19 | 1 | -5/+14 |
| | * | | gnu: python-scipy: Declare python2-variant.•••This is a followup to a50e03014177d2f00b5b85d3e1c295406f842016.
* gnu/packages/python.scm (python-scipy)[properties]: New field.
| Marius Bakke | 2017-02-19 | 1 | -0/+1 |
| | * | | gnu: python-flake8-polyfill: Enable tests.•••* gnu/packages/python.scm (python-flake8-polyfill,
python2-flake8-polyfill)[native-inputs]: Add PYTHON-FLAKE8, PYTHON-MOCK,
PYTHON-PYCODESTYLE and PYTHON-PYTEST. New field.
[arguments]: Replace 'check' phase with custom command.
| Marius Bakke | 2017-02-19 | 1 | -0/+14 |
| | * | | gnu: python-flask-wtf: Drop failing test.•••* gnu/packages/python.scm (python-flask-wtf, python2-flask-wtf)[arguments]:
Add phase to delete file that needs network access.
| Marius Bakke | 2017-02-19 | 1 | -0/+10 |
