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* gnu: Use HTTPS URLs for GitHub home-pages.Leo Famulari2017-04-02
| | | | | | | | | * gnu/packages/bioinformatics.scm, gnu/packages/emacs.scm, gnu/packages/haskell.scm, gnu/packages/libffi.scm, gnu/packages/lisp.scm, gnu/packages/ocaml.scm, gnu/packages/openstack.scm, gnu/packages/python.scm, gnu/packages/ruby.scm, gnu/packages/shells.scm, gnu/packages/statistics.scm, gnu/packages/xdisorg.scm: Use HTTPS URLs for all packages with a home-page on GitHub.
* Merge branch 'master' into core-updatesMarius Bakke2017-03-30
|\ | | | | | | Most conflicts are from 6fd52309b8f52c9bb59fccffac53e029ce94b698.
| * gnu: python-enum34: Update to 1.1.6.Leo Famulari2017-03-29
| | | | | | | | | | * gnu/packages/python.scm (python-enum34, python2-enum34): Update to 1.1.6. [arguments]: Remove custom test phase.
| * gnu: python-pexpect: Add verbose test output.Marius Bakke2017-03-29
| | | | | | | | | | | | | | Fixes <https://bugs.gnu.org/26286>. * gnu/packages/python.scm (python-pexpect, python2-pexpect)[arguments]: Add "-v" to "nosetests" command.
| * gnu: python-pytest-2.9.2: Replace with python-pytest-3.0.Leo Famulari2017-03-28
| | | | | | | | | | | | | | | | | | | | * gnu/packages/python.scm (python-pytest-2.9.2): Replace with ... (python-pytest-3.0): ... new variable. (python2-pytest-3.0): New variable. (python-cryptography, python2-cryptography, python-sphinx-1.5.3)[native-inputs]: Replace python-pytest-2.9.2 with python-pytest-3.0. * gnu/packages/backup.scm (borg)[native-inputs]: Likewise. gnu/packages/calendar.scm (khal)[native-inputs]: Likewise.
| * gnu: Add python-mandoMuriithi Frederick Muriuki2017-03-28
| | | | | | | | | | | | * gnu/packages/python.scm (python-mando, python2-mando): New variables. Signed-off-by: Leo Famulari <leo@famulari.name>
| * gnu: Add python-paramunittestMuriithi Frederick Muriuki2017-03-28
| | | | | | | | | | | | | | * gnu/packages/python.scm (python-paramunittest, python2-paramunittest): New variables. Signed-off-by: Leo Famulari <leo@famulari.name>
| * gnu: Add python-sphinx@1.5.3.Muriithi Frederick Muriuki2017-03-28
| | | | | | | | * gnu/packages/python.scm (python-sphinx-1.5.3): New variable.
| * gnu: Add python-pytest@3.0.7Muriithi Frederick Muriuki2017-03-28
| | | | | | | | | | | | * gnu/packages/python.scm (python-pytest-3.0.7): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* | Merge branch 'master' into core-updatesLeo Famulari2017-03-27
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| * gnu: python2-dogtail: Update to 0.9.9.Efraim Flashner2017-03-25
| | | | | | | | | | * gnu/packages/python.scm (python2-dogtail): Update to 0.9.9. [source]: Download using pypi-uri scheme.
| * gnu: python-appdirs: Use pypi-uri.Leo Famulari2017-03-23
| | | | | | | | | | | | | | This is a followup to commit 543782e1ff1e296d61ca528debe3fc6420f5e45a. * gnu/packages/python.scm (python-appdirs, python2-appdirs)[source]: Use pypi-uri.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2017-03-23
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| * gnu: python-natsort: Update to 5.0.2.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-natsort): Update to 5.0.2.
| * gnu: python2-futures: Update to 3.0.5.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python2-futures): Update to 3.0.5.
| * gnu: python-rauth: Update to 0.7.3.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-rauth): Update to 0.7.3.
| * gnu: python-ipaddress: Update to 1.0.18.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-ipaddress): Update to 1.0.18.
| * gnu: python-appdirs: Update to 1.4.3.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-appdirs): Update to 1.4.3.
| * gnu: python-beautifulsoup4: Update to 4.5.3.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-beautifulsoup4): Update to 4.5.3.
| * gnu: python-drmaa: Update to 0.7.7.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-drmaa): Update to 0.7.7.
| * gnu: python-sqlalchemy-utils: Update to 0.32.13.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-sqlalchemy-utils): Update to 0.32.13.
| * gnu: python-pafy: Update to 0.5.3.1.Tobias Geerinckx-Rice2017-03-23
| | | | | | | | * gnu/packages/python.scm (python-pafy): Update to 0.5.3.1.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2017-03-22
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| * gnu: python-psycopg2: Update to 2.6.2.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-psycopg2): Update to 2.6.2.
| * gnu: python-zope-component: Update to 4.3.0.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | | | * gnu/packages/python.scm (python-zope-component): Update to 4.3.0. [source]: Use pypi-uri.
| * gnu: python-atomicwrites: Update to 1.1.5.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-atomicwrites): Update to 1.1.5.
| * gnu: python-texttable: Update to 0.8.7.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-texttable): Update to 0.8.7.
| * gnu: python-feedgenerator: Update to 1.9.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-feedgenerator): Update to 1.9.
| * gnu: python-wrapt: Update to 1.10.8.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | | | * gnu/packages/python.scm (python-wrapt): Update to 1.10.8. [source]: Use pypi-uri.
| * gnu: python-py: Update to 1.4.32.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-py): Update to 1.4.32.
| * gnu: python-sphinx-cloud-sptheme: Update to 1.8.0.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-sphinx-cloud-sptheme): Update to 1.8.0.
| * gnu: python-wcwidth: Update to 0.1.7.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | | | * gnu/packages/python.scm (python-wcwidth): Update to 0.1.7. [source]: Use pypi-uri.
| * gnu: python-markdown: Update to 2.6.8.Tobias Geerinckx-Rice2017-03-22
| | | | | | | | * gnu/packages/python.scm (python-markdown): Update to 2.6.8.
| * gnu: snakemake: Add runtime dependencies.Ricardo Wurmus2017-03-20
| | | | | | | | | | * gnu/packages/python.scm (snakemake)[propagated-inputs]: Add python-wrapt and python-requests.
| * gnu: Add python-pylint.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python-pylint, python2-pylint): New variables. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| * gnu: Add python2-coverage-test-runner.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python2-coverage-test-runner): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| * gnu: Add python-configparser.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python-configparser, python2-configparser): New variables. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| * gnu: Add python2-backports-functools-lru-cache.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python2-backports-functools-lru-cache): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| * gnu: Add python-isort.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python-isort, python2-isort): New variables. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
| * gnu: Add python-astroid.Arun Isaac2017-03-20
| | | | | | | | | | | | * gnu/packages/python.scm (python-astroid, python2-astroid): New variables. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* | gnu: python-pillow: Fix test failures with freetype-2.7.Leo Famulari2017-03-21
| | | | | | | | | | | | * gnu/packages/patches/python-pillow-freetype-2.7-test-failure.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/python.scm (python-pillow, python2-pillow)[source]: Use it.
* | Merge branch 'master' into core-updatesMark H Weaver2017-03-19
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| * gnu: snakemake: Update to 3.11.2.Ricardo Wurmus2017-03-17
| | | | | | | | * gnu/packages/python.scm (snakemake): Update to 3.11.2.
| * gnu: r: Rename to r-minimal.Ricardo Wurmus2017-03-17
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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".
| * gnu: r: Do not build recommended packages.Ricardo Wurmus2017-03-17
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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.
* | gnu: python-minimal@2: Add dependencies on libffi and zlib.Ludovic Courtès2017-03-19
| | | | | | | | | | * gnu/packages/python.scm (python2-minimal)[inputs]: Add LIBFFI and ZLIB. [arguments]: Remove.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2017-03-16
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| * gnu: python-publicsuffix2: Update to 2.20160818.Tobias Geerinckx-Rice2017-03-16
| | | | | | | | * gnu/packages/python.scm (python-publicsuffix2): Update to 2.20160818.
| * gnu: awscli: Update to 1.11.63.Tobias Geerinckx-Rice2017-03-16
| | | | | | | | * gnu/packages/python.scm (awscli): Update to 1.11.63.
| * gnu: python-botocore: Update to 1.5.26.Tobias Geerinckx-Rice2017-03-16
| | | | | | | | * gnu/packages/python.scm (python-botocore): Update to 1.5.26.
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