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* gnu: Remove python-setuptools and python2-setuptools from inputs (part 4a)•••This patch contains the changes for all modules beside python.scm where setuptools are used in an inherited package and removing this input also removes the need for inheriting the package. This is the case if adding setuptools in the inherited package was the only change. Change this to not inherit and remove the new needless call to "strip-python2-variant (if applicable). * gnu/packages/bioinformatics.scm (python-biopython, python2-biopython, python-twobitreader, python2-twobitreader, python-plastid, python2-plastid, python2-pybigwig, python2-screed, sra-tools): No longer "inherit" Python 2 packages inheriting from a Python 3 package if the sole reason for inheriting was adding python-setuptools respective python2-setuptools to [inputs], [native-inputs] or [propagated-inputs]. Remove now needless [properties] "python2-variant" where applicable. * gnu/packages/django.scm (python-pytest-django, python2-pytest-django, python-django-filter, python2-django-filter): Likewise. * gnu/packages/gnupg.scm (python2-pygpgme): Likewise. * gnu/packages/mail.scm (python-mailmanclient, python2-mailmanclient): Likewise. * gnu/packages/mpd.scm (python-msp, python2-mpd2): Likewise. * gnu/packages/music.scm (python-pylast, python2-pylast): Likewise. * gnu/packages/openstack.scm (python-requests-mock, python2-requests-mock, python2-git-review): Likewise. * gnu/packages/password-utils.scm (python2-bcrypt): Likewise. * gnu/packages/protobuf.scm (python-protobuf, python2-protobuf): Likewise. * gnu/packages/statistics.scm (python-patsy, python2-patsy): Likewise. * gnu/packages/web.scm (python2-feedparser): Likewise. Hartmut Goebel2016-11-15
* gnu: Remove python-setuptools and python2-setuptools from inputs (part 3)•••This patch contains the changes where setuptools are used in an inherited package and removing this input keeps the need for inheriting the package. * gnu/packages/bioinformatics.scm (python2-biom-format): Remove python-setuptools respective python2-setuptools from [inputs], [native-inputs] and [propagated-inputs] in Python 2 packages inheriting from a Python 3 package. * gnu/packages/python.scm (python2-pytest-mock, python2-oauthlib, python2-seaborn, python2-tornado, python2-terminado, python2-rauth, python2-anyjson, python2-amqp, python2-kombu, python2-billiard, python2-celery, python2-jellyfish, python2-binaryornot, python2-natsort, python2-graphene): Likewise. * gnu/packages/statistics.scm (python2-statsmodels): Likewise. Hartmut Goebel2016-11-15
* gnu: Remove python-setuptools and python2-setuptools from inputs (part 2)•••This patch contains the changes where removing setuptools from the inputs affected some code-lines beside. * gnu/packages/admin.scm (ansible): Remove all [inputs], [native-inputs] and [propagated-inputs] where python-setuptools or python2-setuptools are the sole entries. Remove python-setuptools and python2-setuptools listed on a line by its own from [inputs], [native-inputs] and [propagated-inputs]. * gnu/packages/backup.scm (duplicity): Likewise. * gnu/packages/bioinformatics.scm (bamm, python2-pybedtools, python2-bx-python, python2-dendropy, python-pysam, python2-pysam, clipper, crossmap, cutadapt, deeptools, grit, idr, python2-warpedlmm, pbtranscript-tofu, seqmagick): Likewise. * gnu/packages/docbook.scm (dblatex): Likewise. * gnu/packages/freedesktop.scm (python-pyxdg, python2-pyxdg): Likewise. * gnu/packages/lirc.scm (python2-lirc): Likewise. * gnu/packages/mp3.scm (eyed3): Likewise. * gnu/packages/nutrition.scm (gourmet): Likewise. * gnu/packages/openstack.scm (python-hacking, python2-hacking, python-os-testr, python2-os-testr, python-stevedore, python2-stevedore, python-tempest-lib, python2-tempest-lib, python-oslo.log, python2-oslo.log, python-keystoneclient, python2-keystoneclient): Likewise. * gnu/packages/password-utils.scm (assword): Likewise. * gnu/packages/python.scm (python-passlib, python2-passlib, python-babel, python2-babel, python-parse-type, python-pytest, python2-pytest, python-scripttest, python2-scripttest, python-testtools, python2-testtools, python-testscenarios, python2-testscenarios, python-subunit, python2-subunit, python-pbr-0.11, python-pbr, python2-pbr, python-testrepository, python2-testrepository, behave, python-wheel, python2-wheel, python-requests, python2-requests, python-jsonschema, python2-jsonschema, python-pyjwt, python2-pyjwt, python-virtualenv, python2-virtualenv, python-jinja2, python2-jinja2, python-joblib, python2-joblib, python-sphinx, python2-sphinx, python-feedgenerator, python2-feedgenerator, python-scikit-image, python2-scikit-image, python-redis, python2-redis, python2-fastlmm, python-numpydoc, python2-numpydoc, python-matplotlib, python2-matplotlib, python2-pysnptools, python-rpy2, python2-rpy2, python-pillow, python2-pillow, python-pycparser, python2-pycparser, python-cffi, python2-cffi, python-cairocffi, python2-cairocffi, python-drmaa, python2-drmaa, python-pathpy, python2-pathpy, python-simplegeneric, python2-simplegeneric, python-ipython, python2-ipython, python-apsw, python2-apsw, python-lxml, python2-lxml, python-networkx, python2-networkx, python-pyzmq, python2-pyzmq, python-mccabe, python2-mccabe, python-mccabe-0.2.1, python-flake8, python2-flake8, python-flake8-2.2.4, python-mistune, python2-mistune, python-ptyprocess, python2-ptyprocess, python-llfuse, python2-llfuse, python-webob, python2-webob, python-xlrd, python2-xlrd, python-tables, python2-tables, python-pip, python2-pip, python-libarchive-c, python2-libarchive-c, python-docopt, python2-docopt, python-pyrfc3339, python2-pyrfc3339, python-configobj, python2-configobj, python-clint, python2-clint, python-rply, python2-rply, python2-rpython, python-widgetsnbextension, python2-widgetsnbextension jupyter, python-jupyter-console, python2-jupyter-console, python-hy, python2-hy, python-urllib3, python2-urllib3, python-rsa, python2-rsa, python-tox, python2-tox, python2-hypothesis, python-paste, python2-paste, python-pastescript, python2-pastescript, python2-unicodecsv, python-pkgconfig, python2-pkgconfig, python2-rope, python-sqlparse, python2-sqlparse, python-gevent, python2-gevent, python-tabulate, python2-tabulate, python-arrow, python2-arrow, python-cleo, python2-cleo, python-fake-factory, python2-fake-factory, ptpython): Likewise. * gnu/packages/rdf.scm (python-rdflib, python2-rdflib): Likewise. * gnu/packages/terminals.scm (asciinema): Likewise. * gnu/packages/version-control.scm (git-annex-remote-hubic): Likewise. * gnu/packages/xdisorg.scm (arandr): Likewise. Hartmut Goebel2016-11-15
* gnu: Remove python-setuptools and python2-setuptools from inputs (part 1b)•••This patch contains the changes in all modules beside python.scm where removing setuptools from the inputs could be achieved by removing complete lines. * gnu/packages/admin.scm (graphios, thefuck): Remove all [inputs], [native-inputs] and [propagated-inputs] where python-setuptools or python2-setuptools are the sole entries. Remove python-setuptools and python2-setuptools listed on a line by its own from [inputs], [native-inputs] and [propagated-inputs]. * gnu/packages/backup.scm (rdiff-backup): Likewise. * gnu/packages/bioinformatics.scm (htseq, macs, python2-pbcore, rseqc, multiqc): Likewise. * gnu/packages/django.scm (python-django, python2-django, python-django-simple-math-captcha, python2-django-simple-math-captcha): Likewise. * gnu/packages/docker.scm (python-docker-py, docker-compose): Likewise. * gnu/packages/game-development.scm (python-pygame): Likewise. * gnu/packages/key-mon.scm (key-mon): Likewise. * gnu/packages/mail.scm (khard): Likewise. * gnu/packages/music.scm (beets, python2-pyechonest): Likewise. * gnu/packages/openstack.scm (python-bandit, python2-bandit, python-debtcollector, python2-debtcollector, python-mox3, python2-mox3, python-os-client-config, python2-os-client-config, python-oslo.config, python2-oslo.config, python-oslo.context, python2-oslo.context, python-oslo.i18n, python2-oslo.i18n, python-oslo.serialization, python2-oslo.serialization, python-oslosphinx, python2-oslosphinx, python-oslotest, python2-oslotest, python-oslo.utils, python2-oslo.utils, python-swiftclient, python2-swiftclient): Likewise. * gnu/packages/pdf.scm (pdfposter): Likewise. * gnu/packages/tls.scm (python-acme, python2-acme): Likewise. Hartmut Goebel2016-11-15
* gnu: Remove python-setuptools and python2-setuptools from inputs (part 1a)•••This patch contains the changes in python.scm where removing setuptools from the inputs could be achieved by removing complete lines. * gnu/packages/python.scm (python-psutil, python2-psutil, python-py-bcrypt, python2-py-bcrypt, python-paramiko, python2-paramiko, python-httplib2, python2-httplib2, python-ecdsa, python2-ecdsa, python-ccm, python2-ccm, python2-backport-ssl-match-hostname, python-pycrypto, python2-pycrypto, python-six, python2-six, python-dateutil, python2-dateutil, python2-mechanize, python-extras, python2-extras, python-mimeparse, python2-mimeparse, python-nose, python2-nose, python-nose2, python2-nose2, python-unittest2, python2-unittest2, python-py, python2-py, python-testresources, python2-testresources, python-fixtures-0.3.16, python-fixtures, python2-fixtures, python-coverage, python2-coverage, python-discover, python2-discover, python-exif-read, python2-exif-read, python-pyld, python2-pyld, python-certifi, python2-certifi, python-click, python2-click, python-vcversioner, python2-vcversioner, python-unidecode, python2-unidecode, python-pyyaml, python2-pyyaml, python-markupsafe, python2-markupsafe, python-pystache, python2-pystache, python-docutils, python2-docutils, python-pygments, python2-pygments, python-sphinx-rtd-theme, python2-sphinx-rtd-theme, python-blinker, python2-blinker, python-rq, python2-rq, python-numpy, python2-numpy, python-distutils-extra, python2-distutils-extra, python2-elib.intl, python-pillow, python2-pillow, python-xcffib, python2-xcffib, python-decorator, python2-decorator, python-gridmap, python2-gridmap, python-pickleshare, python2-pickleshare, python-isodate, python2-isodate, python-html5lib, python2-html5lib, python2-cssutils, python-cssselect, python2-cssselect, python-netifaces, python2-netifaces, python-sympy, python2-sympy, python-testlib, python2-testlib, python2-xlib, python-singledispatch, python2-singledispatch, python-backports-abc, python2-backports-abc, python-pep8, python2-pep8, python-pyflakes, python2-pyflakes, python-fonttools, python2-fonttools, python-ly, python-appdirs, python2-appdirs, python-netaddr, python2-netaddr, python-wrapt, python2-wrapt, python-iso8601, python2-iso8601, python-monotonic, python2-monotonic, python-prettytable, python2-prettytable, python-pyasn1-modules, python2-pyasn1-modules, python-idna, python2-idna, python-pretend, python2-pretend, python-cryptography-vectors, python2-cryptography-vectors, python-cryptography, python2-cryptography, python-pyopenssl, python2-pyopenssl, python-debian, python2-debian, python-chardet, python2-chardet, python-zope-event, python2-zope-event, python-zope-i18nmessageid, python2-zope-i18nmessageid, python-websocket-client, python2-websocket-client, python-args, python2-args, python-astor, python2-astor, python2-functools32, python2-futures, python2-promise, python-colorama, python2-colorama, python-pluggy, python2-pluggy, python-jmespath, python2-jmespath, python-botocore, python2-botocore, awscli, python-pytest-subtesthack, python2-pytest-subtesthack, python-pastedeploy, python2-pastedeploy, python-magic, python2-magic, python2-s3cmd, python2-bz2file, python-cysignals, python2-cysignals, python-py3status, python-tblib, python2-tblib, python-greenlet, python2-greenlet, python-twisted, python2-twisted, python-kazoo, python2-kazoo, python-pykafka, python2-pykafka, python2-jsonrpclib, python-chai, python2-chai, python-inflection, python2-inflection, python-pylev, python2-pylev, python-lazy-object-proxy, python2-lazy-object-proxy, python-dnspython, python2-dnspython, python-email-validator, python2-email-validator, python-ukpostcodeparser, python2-ukpostcodeparser, python-pyaml, python2-pyaml, python-flexmock, python2-flexmock, python-orator, python2-orator, python-bleach, python2-bleach, python-ipywidgets, python2-ipywidgets, python-nbconvert, python2-nbconvert, python-nbformat, python2-nbformat, python-axolotl-curve25519, python-axolotl2-curve25519, python-axolotl, python2-axolotl, python-nautilus, python-s3transfer): Remove python-setuptools and python2-setuptools from [inputs], [native-inputs] or [propagated-inputs]. Remove [inputs], [native-inputs] and [propagated-inputs] where python-setuptools or python2-setuptools were the sole entry. Hartmut Goebel2016-11-15
* gnu: python-2.7: Add all guix prefixes in PYTHONPATH to site-prefixes.•••* gnu/packages/patches/python-2.7-site-prefixes.patch: New file. * gnu/packages/python.scm (python-2)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add patch. Hartmut Goebel2016-11-15
* gnu: ensure pip and setuptools are installed even for Python 2.•••* gnu/packages/python.scm (python-2.7): Add "--with-ensurepip=install" to configure-flags. * doc/guix.texi (Python Modules): Document it. Hartmut Goebel2016-11-15
* gnu: libmicrohttpd: Update to 0.9.52.•••* gnu/packages/gnunet.scm (libmicrohttpd): Update to 0.9.52. [home-page]: Use https. Efraim Flashner2016-11-15
* gnu: octave: Update to 4.2.0.•••* gnu/packages/maths.scm (octave): Update to 4.2.0. [native-inputs]: Add lzip. [home-page]: Use https. Efraim Flashner2016-11-15
* gnu: parallel: Update to 20161022.•••* gnu/packages/parallel.scm (parallel): Update to 20161022. [home-page]: Use https. Efraim Flashner2016-11-15
* gnu: libcdio: Update to 0.94.•••* gnu/packages/cdrom.scm (libcdio): Update to 0.94. [home-page]: Use https. Efraim Flashner2016-11-15
* gnu: gvpe: Update to 3.0.•••* gnu/packages/vpn.scm (gvpe): Update to 3.0. Efraim Flashner2016-11-15
* gnu: cryptsetup: Update to 1.7.3.•••* gnu/packages/cryptsetup.scm (cryptsetup): Update to 1.7.3. Efraim Flashner2016-11-15
* gnu: python-vcversioner: Update to 2.16.0.0.•••* gnu/packages/python.scm (python-vcversioner): Update to 2.16.0.0. [inputs]: Remove python-setuptools. [properties]: New field. (python2-vcversioner): Use 'strip-python2-variant'. [native-inputs]: Add python2-setuptools. Efraim Flashner2016-11-15
* gnu: fish: Update to 2.4.0.•••* gnu/packages/shells.scm (fish): Update to 2.4.0. Tobias Geerinckx-Rice2016-11-15
* services: Require wpa-supplicant-service for connman-service.•••* gnu/services/networking.scm (connman-shepherd-service): Add wpa-supplicant among list of requirements. Tomáš Čech2016-11-15
* services: Add wpa-supplicant-service.•••* gnu/services/networking.scm (wpa-supplicant-service): New procedure. (wpa-supplicant-service-type): New variable. * doc/guix.texi (Networking Services): Document it. Tomáš Čech2016-11-15
* gnu: connman: Use localstatedir outside of store.•••* gnu/packages/connman.scm (connman): Use localstatedir outside of store. Tomáš Čech2016-11-15
* gnu: python-jsonschema: Use 'nosetests'.•••* gnu/packages/python.scm (python-jsonschema)[arguments]: Replace 'check phase with python nosetests. [native-inputs]: Add python-nose. [home-page]: Use https. (python2-jsonschema)[native-inputs]: Add python2-mock. Efraim Flashner2016-11-14
* gnu: accountsservice: Update to 0.6.43.•••* gnu/packages/freedesktop.scm (accountsservice): Update to 0.6.43. Efraim Flashner2016-11-14
* gnu: guix-devel: Update development snapshot.•••* gnu/packages/package-management.scm (guix-devel): Update to commit 7ca37da855fd921fa3925bb62f8015f770b7e784. Ludovic Courtès2016-11-14
* gnu: guix: Really skip all the container tests.•••* gnu/packages/package-management.scm (guix-0.11.0)[arguments]: Update pattern in 'disable-container-tests' to match 'test-equal'. Ludovic Courtès2016-11-14
* gnu: libpsl: Update to 0.15.0.•••* gnu/packages/web.scm (libpsl): Update to 0.15.0. Tobias Geerinckx-Rice2016-11-14
* gnu: libinput: Enable GUI event tool.•••* gnu/packages/freedesktop.scm (libinput)[inputs]: Add glib. [native-inputs]: Add cairo, gtk+-3. (libinput-minimal)[native-inputs]: Only pkg-config. Efraim Flashner2016-11-14
* gnu: freedesktop.scm: Reorder modules alphabetically.•••* gnu/packages/freedesktop.scm: Reorder modules alphabetically. Efraim Flashner2016-11-14
* gnu: libinput: Update to 1.5.1.•••* gnu/packages/freedesktop.scm (libinput): Update to 1.5.1. Efraim Flashner2016-11-14
* gnu: wayland-protocols: Update to 1.7.•••* gnu/packages/freedesktop.scm (wayland-protocols): Update to 1.7. Efraim Flashner2016-11-14
* gnu: mpv: Use lua@5.2.•••* gnu/packages/video.scm (mpv)[inputs]: Change 'lua' to 'lua-5.2'. Andy Patterson2016-11-14
* gnu: readline-6.2: Fix CVE-2014-2524.•••* gnu/packages/patches/readline-6.2-CVE-2014-2524.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/readline.scm (readline-6.2): Use it. Leo Famulari2016-11-13
* gnu: signify: Update to 20.•••* gnu/packages/crypto.scm (signify): Update to 20. Leo Famulari2016-11-13
* gnu: mailutils: Update to 3.0.•••* gnu/packages/mail.scm (mailutils): Update to 3.0. [arguments]: Adjust 'pre-build' phase. * gnu/packages/patches/m4-gets-undeclared.patch: Remove. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. Ludovic Courtès2016-11-13
* gnu: guile-ncurses: Update to 2.1.•••* gnu/packages/guile.scm (guile-ncurses): Update to 2.1. [home-page]: Use https. Efraim Flashner2016-11-13
* gnu: btrfs-progs: Update to 4.8.3.•••* gnu/packages/linux.scm (btrfs-progs): Update to 4.8.3. Tobias Geerinckx-Rice2016-11-13
* gnu: tidy: Use ‘modify-phases’.•••* gnu/packages/web.scm (tidy)[arguments]: Use the ‘modify-phases’ syntax. Tobias Geerinckx-Rice2016-11-13
* gnu: protobuf: Replace dead Google Code home-page.•••* gnu/packages/protobuf.scm (protobuf)[home-page]: Update it. Tobias Geerinckx-Rice2016-11-13
* gnu: exfat-utils: Update to 1.2.4.•••* gnu/packages/mtools.scm (exfat-utils): Update to 1.2.4. [source, home-page]: Move away from dead Google Code project. [arguments, native-inputs]: Remove. Tobias Geerinckx-Rice2016-11-13
* gnu: clisp: Use readline@6.2.•••* gnu/packages/lisp.scm (clisp)[inputs]: Use readline-6.2. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Andy Patterson2016-11-13
* Merge branch 'core-updates'Ludovic Courtès2016-11-13
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| * gnu: gnome-calculator: Update to 3.22.2.•••* gnu/packages/gnome.scm (gnome-calculator): Update to 3.22.2. Ludovic Courtès2016-11-09
| * gnu: gcc-arm-none-eabi-4.9: Remove non-applicable patch.•••* gnu/packages/embedded.scm (gcc-arm-none-eabi-4.9)[patches]: Remove "gcc-arm-bug-71399.patch" from XGCC's patches. Ludovic Courtès2016-11-08
| * system: Reintroduce 'GUIX_LOCPATH', for compatibility with glibc@2.23.•••* gnu/system.scm (operating-system-environment-variables): Re-add 'GUIX_LOCPATH'. This reverts part of 9f58fe3d1c32e3f0ced065e286532a10cad1b5e3. Ludovic Courtès2016-11-08
| * gnu: mate-themes: Update to 3.20.9.•••* gnu/packages/mate.scm (mate-themes): Update to 3.20.9. [source]: Update package location. [inputs]: Remove gtk+-2, add gtk+-3. [description]: Add note about dual gtk+-2/gtk+-3 support. Efraim Flashner2016-11-08
| * gnu: mate-menus: Update to 1.16.0.•••* gnu/packages/mate.scm (mate-menus): Update to 1.16.0. [propagated-inputs]: Move glib ... [inputs]: ... to here. Efraim Flashner2016-11-08
| * gnu: mate-desktop: Update to 1.16.1.•••* gnu/packages/mate.scm (mate-desktop): Update to 1.16.1. [arguments]: Build with gtk+-3, enable mpaste. [propagated-inputs]: Remove gtk+-2, move libxrandr, startup-notification ... [inputs]: ... to here. Add gtk+-3, python-2. Efraim Flashner2016-11-08
| * gnu: mate-icon-theme: Update to 1.16.0.•••* gnu/packages/mate.scm (mate-icon-theme): Update to 1.16.0. Efraim Flashner2016-11-08
| * gnu: libmateweather: Update to 1.16.1.•••* gnu/packages/mate.scm (libmateweather): Update to 1.16.1. [arguments]: Build with gtk+-3. [propagated-inputs]: Remove gtk+-2, move gdk-pixbuf ... [inputs]: ... to here. Add gtk+-3. Efraim Flashner2016-11-08
| * gnu: gcc@4.7: Build with texinfo@5.•••* gnu/packages/gcc.scm (gcc@4.7)[native-inputs]: Use texinfo@5 in place of texinfo@6. Efraim Flashner2016-11-08
| * gnu: gnupg: Add TODO comment about custom build phase.•••* gnu/packages/gnupg.scm (gnupg)[arguments]: Add comment. Leo Famulari2016-11-08
| * Merge branch 'master' into core-updatesMark H Weaver2016-11-07
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| * | gnu: glibc: Add version 2.23.•••* gnu/packages/base.scm (glibc-2.23): New variable. Ludovic Courtès2016-11-07