d72f76df11
gnu: eolie: Update to 0.9.12.
...
* gnu/packages/gnome.scm (eolie): Update to 0.9.12.
[inputs]: Add python-dateutil.
2017-11-17 23:18:50 +01:00
a8714bf680
gnu: Move database packages from python.scm to databases.scm.
...
* gnu/packages/python.scm (python-ccm, python2-ccm, python2-pysqlite,
python-sqlalchemy, python2-sqlalchemy, python-sqlalchemy-utils,
python2-sqlalchemy-utils, python-alembic, python2-alembic,
python-pickleshare, python2-pickleshare, python-apsw, python2-apsw,
python2-neo4j-driver, python2-py2neo, python-psycopg2, python2-psycopg2,
python-sadisplay, python2-sadisplay, python-mysqlclient,
python2-mysqlclient, python-hiredis, python2-hiredis, python-fakeredis,
python2-fakeredis, python-redis, python2-redis, python-rq, python2-rq,
python-trollius-redis, python2-trollius-redis, python-sqlparse,
python2-sqlparse, python-sql, python2-sql): Move from here...
* gnu/packages/databases.scm: ...to here.
* gnu/packages/tryton.scm,
gnu/packages/python-web.scm,
gnu/packages/nutrition.scm,
gnu/packages/medical.scm: Adjust accordingly.
2017-11-17 22:36:27 +01:00
be6eb2f1e6
gnu: python-scikit-learn: Move from python.scm to machine-learning.scm.
...
* gnu/packages/python.scm (python-scikit-learn, python2-scikit-learn): Move
from here...
* gnu/packages/machine-learning.scm: ...to here.
2017-11-17 22:36:26 +01:00
98c6a02573
gnu: Move more web packages from python.scm to python-web.scm.
...
* gnu/packages/python.scm (python-pastescript, python2-pastescript,
python-paste, python2-paste, python-werkzeug, python2-werkzeug, python-bottle,
python2-bottle, python-wtforms, python2-wtforms): Move from here...
* gnu/packages/python-web.scm: ...to here.
2017-11-17 22:36:26 +01:00
ac257f127a
gnu: Move testing packages from python.scm to check.scm.
...
* gnu/packages/python.scm (python-behave-web-api, python2-behave-web-api,
python-mock, python2-mock, python-mock-2, python-nose, python2-nose,
python-nose2, python2-nose2, python-unittest2, python2-unittest2,
python-pytest, python2-pytest, python-pytest-3.0, python2-pytest-3.0,
python-pytest-cov, python2-pytest-cov, python-pytest-runner,
python2-pytest-runner, python-pytest-mock, python2-pytest-mock,
python-pytest-xdist, python2-pytest-xdist, python-scripttest,
python2-scripttest, python-testtools, python2-testtools, python-testscenarios,
python2-testscenarios, python-testresources, python2-testresources,
python-subunit, python2-subunit, python-fixtures, python2-fixtures,
python-testrepository, python2-testrepository, python-coverage,
python2-coverage, python-cov-core, python2-cov-core, python-testpath,
python2-testpath, python-testlib, python2-testlib, python-pytest-cache,
python2-pytest-cache, python-pytest-localserver, python-pytest-xprocess,
python-pytest-subtesthack, python2-pytest-subtesthack, python-hypothesis,
python2-hypothesis, python-lit, python2-lit, python-pytest-pep8,
python2-pytest-pep8, python-pytest-flakes, python2-pytest-flakes,
python2-coverage-test-runner, python-pylint, python2-pylint,
python-paramunittest, python2-python-paramunittest, python-pytest-warnings,
python2-pytest-warnings, python-pytest-capturelog, python2-pytest-capturelog,
python-pytest-catchlog, python2-pytest-catchlog, python-nosexcover,
python2-nosexcover, python-discover, python2-discover, behave, python-rednose,
python2-rednose, python-nose-randomly, python2-nose-randomly,
python-nose-timer, python2-nose-timer): Move from here...
* gnu/packages/check.scm: ...to here.
* gnu/packages/admin.scm,
gnu/packages/android.scm,
gnu/packages/backup.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/calendar.scm,
gnu/packages/dav.scm,
gnu/packages/django.scm,
gnu/packages/freedesktop.scm,
gnu/packages/haskell.scm,
gnu/packages/image.scm,
gnu/packages/irc.scm,
gnu/packages/jrnl.scm,
gnu/packages/ldc.scm,
gnu/packages/libffi.scm,
gnu/packages/mail.scm,
gnu/packages/mpd.scm,
gnu/packages/openstack.scm,
gnu/packages/package-management.scm,
gnu/packages/password-utils.scm,
gnu/packages/python-crypto.scm,
gnu/packages/python-web.scm,
gnu/packages/rdf.scm,
gnu/packages/statistics.scm,
gnu/packages/storage.scm,
gnu/packages/time.scm,
gnu/packages/tls.scm,
gnu/packages/tor.scm,
gnu/packages/tryton.scm: Adjust accordingly.
2017-11-17 22:36:26 +01:00
ff49437df7
gnu: Add qmidiroute.
...
* gnu/packages/music.scm (qmidiroute): New variable.
2017-11-17 22:36:26 +01:00
fc8d6953e2
gnu: cheese: Update to 3.26.0.
...
* gnu/packages/gnome.scm (cheese): Update to 3.26.0
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-11-17 16:34:28 -05:00
3fe4c9dcc4
gnu: Add emacs-transmission.
...
* gnu/packages/emacs.scm (emacs-transmission): New variable.
2017-11-17 13:37:12 +03:00
669be6acfe
gnu: cool-retro-term: Fix qml path.
...
* gnu/packages/terminals.scm (cool-retro-term): Fix qml path.
2017-11-17 13:28:08 +03:00
9bc646d053
gnu: eog: Update to 3.26.2.
...
* gnu/packages/gnome.scm (eog): Update to 3.26.2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-17 11:00:20 +01:00
cf8ec425d5
gnu: gnome-disk-utility: Update to 3.26.2.
...
* gnu/packages/gnome.scm (gnome-disk-utility): Update to 3.26.2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-17 11:00:18 +01:00
64a4d39403
gnu: nftables: Update to 0.8.
...
* gnu/packages/linux.scm (nftables): Update to 0.8.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-17 10:59:21 +01:00
284d7da3bb
gnu: libnftnl: Update to 1.0.8.
...
* gnu/packages/linux.scm (libnftnl): Update to 1.0.8.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-17 10:59:00 +01:00
ef2c6b4095
gnu: Add qucs-s.
...
* gnu/packages/engineering.scm (qucs-s): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 10:53:06 +01:00
0b4dbb401c
gnu: syslinux: Add explicit dependency on mtools.
...
Suggested by Adam Van Ymeren <adam@vany.ca>
at <https://bugs.gnu.org/28974 >.
* gnu/packages/bootloaders.scm (syslinux)[inputs]: Add MTOOLS.
[ARGUMENTS]: In 'patch-files' phase, patch references to 'mcopy' and
'mattrib'.
2017-11-16 10:43:40 +01:00
afc4382316
gnu: wget: Add wget2.
...
* gnu/packages/wget.scm (wget2): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 10:27:42 +01:00
15712cc9e3
gnu: spectrwm: Update to 3.1.0.
...
* gnu/packages/wm.scm (spectrwm): Update to 3.1.0.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 10:25:40 +01:00
42e52605d4
gnu: xpra: Fix paths.
...
* gnu/packages/xorg.scm (xpra): [arguments]: Add '--without-opengl',
'--without-Xdummy' and '--without-Xdummy-wrapper' to #:configure-flags. Add
substitutions to #phases for proper paths.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 10:21:40 +01:00
d9cd1c2272
gnu: messaging: Enable OMEMO for dino.
...
* gnu/packages/messaging.scm (dino): Update to commit
f6ac5bbd26638412a2289fd1d28ef12de1d7e8b5.
[inputs]: Add libsignal-protocol-c and libgcrypt.
[arguments]: Change #configure-flags to "-DSHARED_SIGNAL_PROTOCOL=yes".
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 09:50:06 +01:00
0d549f60df
gnu: messaging: Add libsignal-protocol-c.
...
* gnu/packages/messaging.scm (libsignal-protocol-c): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-16 09:42:45 +01:00
589e3f4e70
gnu: Move more packages from python to python-web.
...
* gnu/packages/python.scm (python-requests, python2-requests)
(python-requests-2.7, python-oauthlib, python2-oauthlib)
(python-furl, python2-furl, python-wsgi-intercept)
(python-publicsuffix, python2-publicsuffix)
(python-publicsuffix2, python2-publicsuffix2): Move to...
* gnu/packages/python-web.scm: ... here.
* gnu/packages/bioinformatics.scm, gnu/packages/finance.scm:
gnu/packages/maths.scm, gnu/packages/terminals.scm,
gnu/packages/video.scm, gnu/packages/virtualization.scm: Adjust
accordingly.
2017-11-16 08:45:15 +01:00
b95c17c58b
gnu: Move Python packages from crypto to python-crypto.
...
* gnu/packages/crypto.scm (python-asn1crypto, python2-asn1crypto)
(python-pynacl, python2-roca-detect): Move to python-crypto.scm.
* gnu/packages/gnupg.scm (python2-pgpdump): Move to python-crypto.scm.
* gnu/packages/python-crypto.scm (python-asn1crypto, python2-asn1crypto)
(python-pynacl, python2-pgpdump, python2-roca-detect): New variables.
2017-11-16 08:45:15 +01:00
cc6f49121b
gnu: Move crypto packages from python to python-crypto.
...
* gnu/packages/python.scm (python-passlib, python2-passlib)
(python-py-bcrypt, python2-py-bcrypt)
(python-paramiko, python2-paramiko, python-ecdsa, python2-ecdsa)
(python-pycrypto, python2-pycrypto, python-keyring, python2-keyring)
(python-certifi, python2-certifi)
(python-cryptography-vectors, python2-cryptography-vectors)
(python-cryptography, python2-cryptography)
(python-pyopenssl, python2-pyopenssl)
(python-axolotl-curve25519, python2-axolotl-curve25519)
(python-axolotl, python2-axolotl, python2-slowaes)
(python-pyaes, python2-pyaes): Move to...
* gnu/packages/python-crypto.scm: ... here. New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/admin.scm, gnu/packages/backup.scm,
gnu/packages/crypto.scm, gnu/packages/finance.scm,
gnu/packages/irc.scm, gnu/packages/jrnl.scm,
gnu/packages/messaging.scm, gnu/packages/openstack.scm,
gnu/packages/python-web.scm, gnu/packages/tls.scm,
gnu/packages/xorg.scm: Adjust accordingly.
2017-11-16 08:45:15 +01:00
c114c9c5d8
gnu: linux-libre: Update to 4.14.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.14.
(%linux-libre-hash): Update hash.
* gnu/packages/aux-files/linux-libre/4.13-arm.conf,
gnu/packages/aux-files/linux-libre/4.13-i686.conf,
gnu/packages/aux-files/linux-libre/4.13-x86_64.conf: Delete files.
* gnu/packages/aux-files/linux-libre/4.14-arm.conf,
gnu/packages/aux-files/linux-libre/4.14-i686.conf,
gnu/packages/aux-files/linux-libre/4.14-x86_64.conf: New files.
* Makefile.am (AUX_FILES): Update accordingly.
2017-11-16 00:03:34 -05:00
811a24ca5f
gnu: linux-libre@4.9: Update to 4.9.62.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.62.
2017-11-16 00:03:00 -05:00
6f0e2c2b4a
gnu: linux-libre@4.4: Update to 4.4.98.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.98.
2017-11-16 00:02:24 -05:00
f1e3214534
gnu: icecat: Add more fixes from upstream mozilla-esr52.
...
Add fixes for CVE-2017-7830, the remaining 1/2 changesets for CVE-2017-7828,
the remaining 1/19 changesets for CVE-2017-7826, and selected other fixes.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the
upstream mozilla-esr52 repository.
* gnu/packages/patches/icecat-bug-1348660-pt5.patch,
gnu/packages/patches/icecat-bug-1415133.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
2017-11-16 00:01:46 -05:00
6a71fa6faa
gnu: icecat: Label patches to reflect CVE assignments.
...
Document that we include 18/19 changesets for CVE-2017-7826, and 1/2
changesets for CVE-2017-7828.
* gnu/packages/gnuzilla.scm (icecat)[source]: Rename patches to reflect CVE
assignments.
2017-11-16 00:01:21 -05:00
ed0f9f53ab
gnu: iproute2: Update to 4.14.1.
...
* gnu/packages/linux.scm (iproute): Update to 4.14.1.
2017-11-15 12:45:26 +01:00
7c1adf0090
gnu: gnucash: Use HTTPS for www.gnucash.org.
...
* gnu/packages/gnucash.scm (gnucash, gnucash-docs)[home-page]: Use HTTPS.
2017-11-15 03:19:19 +01:00
471ce31cd7
gnu: gnucash: Update to 2.6.18.
...
* gnu/packages/gnucash.scm (gnucash): Update to 2.6.18.
2017-11-15 03:19:18 +01:00
c27f48573e
gnu: youtube-dl: Update to 2017.11.15.
...
* gnu/packages/video.scm (youtube-dl): Update to 2017.11.15.
2017-11-15 03:19:18 +01:00
99adfd7d3d
gnu: geoclue: Use HTTPS for home page.
...
* gnu/packages/gnome.scm (geoclue)[home-page]: Use HTTPS.
2017-11-15 03:19:18 +01:00
dba7028f14
gnu: geoclue: Update to 2.4.7.
...
* gnu/packages/gnome.scm (geoclue): Update to 2.4.7.
2017-11-15 03:19:17 +01:00
06d2a63c15
gnu: aria2: Update to 1.33.1.
...
* gnu/packages/bittorrent.scm (aria2): Update 1.33.1.
2017-11-15 03:19:17 +01:00
c115b2dbe0
gnu: smartmontools: Mark up description.
...
* gnu/packages/admin.scm (smartmontools)[description]: Use @dfn.
2017-11-15 03:19:17 +01:00
bd2eedd116
gnu: smartmontools: Update to 6.6.
...
* gnu/packages/admin.scm (smartmontools): Update to 6.6.
2017-11-15 03:19:16 +01:00
8c2dcedd1d
gnu: devhelp: Update to 3.26.0.
...
* gnu/packages/gnome.scm (devhelp): Update to 3.26.0.
2017-11-14 17:50:33 -05:00
1697307185
gnu: Add guile-wiredtiger.
...
* gnu/packages/databases.scm (guile-wiredtiger): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-14 23:46:53 +01:00
52b617ffeb
gnu: Update awscli to 1.11.185.
...
* gnu/packages/python-web.scm (awscli): Update to 1.11.185.
2017-11-14 14:20:42 -05:00
31d9e454ad
gnu: gnome-calculator: Update to 3.26.0.
...
* gnu/packages/gnome.scm (gnome-calculator): Update to 3.26.0.
2017-11-14 14:12:42 -05:00
a5a22d7b14
gnu: gnome-system-monitor: Update to 3.26.0.
...
* gnu/packages/gnome.scm (gnome-system-monitor): Update to 3.26.0.
2017-11-14 13:47:03 -05:00
85a9ffcbf4
gnu: exim: Use HTTPS for home page.
...
* gnu/packages/mail.scm (exim)[home-page]: Use HTTPS.
2017-11-14 04:06:53 +01:00
58b8d1b39f
gnu: iproute2: Update to 4.14.0.
...
* gnu/packages/linux.scm (iproute): Update to 4.14.0.
2017-11-14 04:06:53 +01:00
1b2f753d9c
gnu: Move web packages from python to python-web.
...
This is in part to address <https://bugs.gnu.org/27284 >.
* gnu/packages/python.scm (python-httplib2, python2-httplib2)
(python-sockjs-tornado, python2-sockjs-tornado)
(python-flask-babel, python2-flask-babel)
(python-html5lib, python2-html5lib)
(python-html5lib-0.9, python2-html5lib-0.9)
(python-html5-parser, python2-html5-parser)
(python-webencodings, python2-webencodings)
(python-openid, python2-openid, python-cssutils, python2-cssutils)
(python-cssselect, python2-cssutils)
(python-openid-cla, python2-openid-cla)
(python-openid-teams, python2-openid-teams)
(python-tornado, python2-tornado)
(python-tornado-http-auth, python-terminado, python2-terminado)
(python-webob, python2-webob, python-zope-event, python2-zope-event)
(python-zope-interface, python2-zope-interface)
(python-zope-exceptions, python2-zope-exceptions)
(python-zope-testing, python2-zope-testing)
(python-zope-testrunner, python2-zope-testrunner)
(python-zope-i18nmessageid, python2-zope-i18nmessageid)
(python-zope-schema, python2-zope-schema)
(python-zope-configuration, python2-zope-configuration)
(python-zope-proxy, python2-zope-proxy)
(python-zope-location, python2-zope-location)
(python-zope-security, python2-zope-security)
(python-zope-component, python2-zope-component)
(python-ndg-httpsclient, python2-ndg-httpsclient)
(python-websocket-client, python2-websocket-client)
(python-requests-toolbelt, python2-requests-toolbelt)
(python-rauth, python2-rauth, python-urllib3, python2-urllib3)
(awscli, python-wsgiproxy2, python2-wsgiproxy2)
(python-pastedeploy, python2-pastedeploy)
(python-webtest, python2-webtest, python-flask, python2-flask)
(python-flast-wtf, python2-flask-wtf)
(python-flask-multistatic, python2-flask-multistatic)
(python-cookies, python2-cookies)
(python-responses, python2-responses)
(python-geventhttpclient, python2-geventhttpclient)
(python-requests-oauthlib, python2-requests-oauthlib)
(python-url, python2-url, python-cachecontrol, python2-cachecontrol)
(python-betamax, python2-betamax)
(python-betamax-matchers, python2-betamax-matchers)
(python-s3transfer, python2-s3transfer)
(python-flask-restful, python-flask-basicauth)
(python-flask-sqlalchemy, python-flask-restplus)
(python-flask-restful-swagger, python-htmlmin, python2-htmlmin)
(python-flask-htmlmin, python2-flask-htmlmin)
(python-flask-login, python2-flask-login)
(python-oauth2client, python-flask-oidc)
(python-webassets, python-cssmin, python2-cssmin)
(python-elasticsearch, python2-elasticsearch)
(python-flask-script, python2-flask-script)
(python-flask-migrate, python2-flask-migrate)
(python-genshi, python2-genshi)
(python-flask-principal, python2-flask-principal)
(python-flask-httpauth, python2-flask-httpauth)
(python-uritemplate, python2-uritemplate): Move to...
* gnu/packages/python-web.scm: ... here. New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/admin.scm, gnu/packages/backup.scm,
gnu/packages/dav.scm, gnu/packages/django.scm,
gnu/packages/docker.scm, gnu/packages/ebook.scm,
gnu/packages/logging.scm, gnu/packages/mail.scm,
gnu/packages/music.scm, gnu/packages/openstack.scm,
gnu/packages/package-management.scm, gnu/packages/rdf.scm,
gnu/packages/tls.scm, gnu/packages/tor.scm,
gnu/packages/tryton.scm, gnu/packages/version-control.scm,
gnu/packages/web-browsers.scm,
gnu/packages/web.scm: Adjust accordingly.
2017-11-13 23:41:01 +01:00
a68e586097
gnu: diamond: Update to 0.9.13.
...
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.13.
2017-11-14 08:25:43 +10:00
5ccde2079e
gnu: Move test packages from perl to perl-check.
...
* gnu/packages/perl.scm (perl-test2-bundle-extended,
perl-test2-plugin-nowarnings, perl-test-base, perl-test-class,
perl-test-class-most, perl-test-cleannamespaces, perl-test-command,
perl-test-cpan-meta, perl-test-cpan-meta-json, perl-test-deep,
perl-test-differences, perl-test-directory, perl-test-eol,
perl-test-exception, perl-test-fatal, perl-test-file-sharedir-dist,
perl-test-files, perl-test-harness, perl-test-leaktrace,
perl-test-longstring, perl-test-manifest, perl-test-memory-cycle,
perl-test-mockobject, perl-test-mocktime, perl-test-most, perl-test-needs,
perl-test-notabs, perl-test-nowarnings, perl-test-number-delta,
perl-test-output, perl-test-pod, perl-test-pod-coverage, perl-test-requires,
perl-test-script, perl-test-sharedfork, perl-test-simple, perl-test-taint,
perl-test-tester, perl-test-trap, perl-test-utf8, perl-test-warn,
perl-test-warnings, perl-test-without-module, perl-test-writevariants,
perl-test-yaml, perl-test-trailingspace): Move variables to ...
* gnu/packages/perl-check.scm: ... this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/admin.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/crypto.scm,
gnu/packages/databases.scm,
gnu/packages/glib.scm,
gnu/packages/gnupg.scm,
gnu/packages/image-viewers.scm,
gnu/packages/language.scm,
gnu/packages/networking.scm,
gnu/packages/package-management.scm,
gnu/packages/perl.scm,
gnu/packages/terminals.scm,
gnu/packages/tex.scm,
gnu/packages/version-control.scm,
gnu/packages/web.scm,
gnu/packages/xml.scm,
gnu/packages/xorg.scm: Use perl-check module.
2017-11-13 23:03:01 +01:00
587d175266
gnu: ghc-tls: Move to (gnu packages tls).
...
* gnu/packages/haskell.scm (ghc-tls): Move from here...
* gnu/packages/tls.scm (ghc-tls): ...to here.
* gnu/packages/haskell-web.scm: Use (gnu packages tls).
2017-11-13 18:40:55 +01:00
f24eba89f4
gnu: Move crypto packages from haskell to haskell-crypto.
...
* gnu/packages/haskell.scm (ghc-asn1-types, ghc-asn1-encoding, ghc-asn1-parse,
ghc-crypto-api, ghc-crypto-api-tests, ghc-cryptohash, ghc-cryptohash-md5,
ghc-cryptohash-sha1, ghc-cryptonite, ghc-digest, ghc-entropy, ghc-pem,
ghc-puremd5, ghc-sha, ghc-x509, ghc-x509-store, ghc-x509-validation,
ghc-x509-system): Move variables to ...
* gnu/packages/haskell-crypto.scm: ... this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/haskell.scm,
gnu/packages/haskell-web.scm,
gnu/packages/version-control.scm: Include haskell-crypto module.
2017-11-13 18:36:51 +01:00
44b7374a22
gnu: Move web packages from haskell to haskell-web.
...
* gnu/packages/haskell.scm (ghc-tagsoup, ghc-cookie, ghc-http-types, ghc-http,
ghc-http-client, ghc-http-client-tls, ghc-http-date, ghc-http2,
ghc-http-conduit, ghc-wai, ghc-wai-logger, ghc-wai-extra, ghc-wai-conduit,
ghc-warp, ghc-warp-tls, ghc-xss-sanitize, ghc-css-text, ghc-mime-types,
ghc-html, ghc-xhtml, ghc-blaze-html, ghc-aeson, ghc-aeson-pretty,
ghc-aeson-qq, ghc-multipart): Move variables to ...
* gnu/packages/haskell-web.scm: ... this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/haskell.scm,
gnu/packages/idris.scm,
gnu/packages/version-control.scm,
gnu/packages/wm.scm: Include haskell-web module.
2017-11-13 18:12:37 +01:00
a06b9b5007
gnu: Move testing packages from haskell to haskell-check.
...
* gnu/packages/haskell.scm (ghc-clock-bootstrap, ghc-tasty-ant-xml,
ghc-tasty-smallcheck, ghc-tasty-quickcheck, ghc-tasty-golden, ghc-tasty,
ghc-tasty-hunit, ghc-tasty-kat, ghc-tasty-th, ghc-tasty-rerun,
ghc-quickcheck-instances, ghc-quickcheck-unicode, ghc-quickcheck-io,
ghc-quickcheck, ghc-test-framework, ghc-test-framework-hunit,
ghc-test-framework-quickcheck2, ghc-test-framework-th, ghc-hunit,
hspec-discover, ghc-hspec-core, ghc-hspec-meta, ghc-hspec, ghc-hspec-contrib,
ghc-hspec-expectations): Move variables to ...
* gnu/packages/haskell-check.scm: ... this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/packages/haskell.scm,
gnu/packages/idris.scm,
gnu/packages/version-control.scm,
gnu/packages/wm.scm: Include haskell-check module.
2017-11-13 18:12:27 +01:00
d4735e8c65
gnu: cd-hit: Update source tarball hash.
...
* gnu/packages/bioinformatics.scm (cd-hit)[source]: Update hash.
2017-11-13 16:02:35 +01:00
62f0806f4c
Revert "gnu: totem: Enable parallel build."
...
This reverts commit e5f748a6c0
2017-11-13 07:47:23 -05:00
b918473189
gnu: guix: Update snapshot.
...
* gnu/packages/package-management.scm (guix): Update to ff23b47
2017-11-13 11:31:27 +01:00
6b7490b340
gnu: ibus: Update to 1.5.17.
...
* gnu/packages/ibus.scm (ibus): Update to 1.5.17.
2017-11-13 10:19:26 +02:00
ce12b31157
gnu: ibus: Enable wayland support.
...
* gnu/packages/ibus.scm (ibus)[arguments]: Add configure flag to enable
wayland support.
[inputs]: Add wayland.
2017-11-13 10:19:26 +02:00
f35bb0711c
gnu: libsoup: Update to 2.60.2.
...
* gnu/packages/gnome.scm (libsoup): Update to 2.60.2.
2017-11-12 21:20:24 -05:00
c0d1fa64d0
gnu: imagemagick: Update to 6.9.9-23.
...
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.9-23.
2017-11-12 17:50:01 -05:00
2560aa7adb
gnu: Remove unrar.
...
This package is abandoned upstream and contains serious bugs:
http://seclists.org/oss-sec/2017/q3/329
https://cve.mitre.org/cgi-bin/cvename.cgi?name=CVE-2017-14120
https://cve.mitre.org/cgi-bin/cvename.cgi?name=CVE-2017-14121
https://cve.mitre.org/cgi-bin/cvename.cgi?name=CVE-2017-14122
* gnu/packages/compression.scm (unrar): Remove variable.
2017-11-12 16:17:08 -05:00
8420c7a356
gnu: linux-libre: Change URL to HTTPS.
...
* gnu/packages/linux.scm (linux-libre): Change URL to HTTPS.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-11-12 15:46:44 -05:00
1650cf9284
gnu: mupdf: Unbundle mujs.
...
* gnu/packages/pdf.scm (mupdf)[source]: Remove bundled mujs.
[inputs]: Add mujs.
2017-11-12 19:39:21 +02:00
89ba894eb3
gnu: Add mujs.
...
* gnu/packages/javascript.scm (mujs): New variable.
2017-11-12 19:39:20 +02:00
76379dcace
gnu: mupdf: Use https.
...
* gnu/packages/pdf.scm (mupdf)[source]: Use https.
[home-page]: Same.
2017-11-12 19:39:20 +02:00
31f248fa2c
gnu: pdf.scm: Arrange modules alphabetically.
...
* gnu/packages/pdf.scm: Arrange modules alphabetically.
2017-11-12 19:39:17 +02:00
b07bfd06ee
gnu: lash: Don't build static libraries.
...
* gnu/packages/audio.scm (lash)[arguments]: Add configure-flag to
disable static libraries.
2017-11-12 12:04:49 +02:00
44df780768
gnu: lash: Don't build lashd.
...
This fixes bug#28174.
* gnu/packages/audio.scm (lash)[arguments]: Add phase to skip building lashd.
2017-11-12 12:04:46 +02:00
c7b433de47
gnu: glib-networking: Update to 2.54.1.
...
* gnu/packages/gnome.scm (glib-networking): Update to 2.54.1.
2017-11-12 01:17:10 -05:00
1e2a36e1b0
gnu: ffmpeg: Reduce the size of the closure.
...
* gnu/packages/video.scm (ffmpeg)[arguments]: Add new configure flags to
disable the html man pages and the static libraries.
2017-11-12 07:11:29 +02:00
7e0d513fb9
gnu: mupdf: Use Texinfo for the description.
...
* gnu/packages/pdf.scm (mupdf)[description]: Use Texinfo to mark up the
description.
2017-11-12 07:11:25 +02:00
b7ca42aa99
gnu: w3m: Find an editor in the environment.
...
* gnu/packages/w3m.scm (w3m)[arguments]: Pass an empty value for --with-editor
in #:configure-flags.
[source]: Use git-file-name.
2017-11-11 23:04:39 -05:00
882d921344
gnu: mupdf: Actually fix CVE-2017-15587.
...
The original fix could be removed by an optimizing compiler.
* gnu/packages/patches/mupdf-CVE-2017-15587.patch: Revise patch.
2017-11-11 22:34:24 -05:00
07cc9245e6
gnu: libusb-compat: Use the same home page as libusb.
...
* gnu/packages/libusb.scm (libusb-compat)[home-page]: Update.
2017-11-12 03:25:49 +01:00
5ade9bc769
gnu: fcgi: Fix typo in description.
...
* gnu/packages/web.scm (fcgi)[description]: Fix typo.
2017-11-12 03:25:48 +01:00
d1b5043947
gnu: fcgi: Use archived home page fork.
...
* gnu/packages/web.scm (fcgi)[home-page]: Use archived version.
2017-11-12 03:25:48 +01:00
9c2917f9e7
gnu: lynx: Use new home page.
...
* gnu/packages/web-browsers.scm (lynx)[home-page]: Update.
2017-11-12 03:25:47 +01:00
6862e4bfe7
gnu: perl-mime-types: Update to 2.14.
...
* gnu/packages/perl.scm (perl-mime-types): Update to 2.14.
2017-11-12 03:25:47 +01:00
f9035ef213
gnu: mailutils: Update to 3.4.
...
* gnu/packages/mail.scm (mailutils): Update to 3.4.
2017-11-11 23:21:54 +01:00
cda2e2c719
gnu: emacs-emms: Update to 4.4.
...
* gnu/packages/emacs.scm (emms): Update to 4.4.
2017-11-11 23:21:54 +01:00
327df26fbf
gnu: nyacc: Update to 0.82.4.
...
* gnu/packages/mes.scm (nyacc): Update to 0.82.4.
2017-11-11 23:11:04 +01:00
4564782c3d
gnu: nvi: Build with support for Unicode text.
...
* gnu/packages/nvi.scm (nvi)[arguments]: Pass '--enable-widechar'
to #:configure-flags.
2017-11-11 12:00:37 -05:00
56f35d92f5
gnu: lvm2: Update to 2.02.176.
...
* gnu/packages/linux.scm (lvm2): Update to 2.02.176.
2017-11-11 07:40:55 +01:00
ec03062171
gnu: libstaroffice: Update to 0.0.5.
...
* gnu/packages/libreoffice.scm (libstaroffice): Update to 0.0.5.
2017-11-11 07:18:34 +01:00
45d5c80253
gnu: libvisio: Update to 0.1.6.
...
* gnu/packages/libreoffice.scm (libvisio): Update to 0.1.6.
[source](patches): Remove.
* gnu/packages/patches/libvisio-fix-tests.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2017-11-11 07:15:39 +01:00
7a9283a619
gnu: libetonyek: Update to 0.1.7.
...
* gnu/packages/libreoffice.scm (libetonyek): Update to 0.1.7.
[source](patches): Remove.
[arguments]<#:phases>: Remove.
[native-inputs]: Remove AUTOCONF and AUTOMAKE.
* gnu/packages/patches/libetonyek-build-with-mdds-1.2.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2017-11-11 07:13:01 +01:00
074ff555ab
gnu: libreoffice: Update to 5.3.7.2 and enable GTK3.
...
* gnu/packages/libreoffice.scm (libreoffice): Update to 5.3.7.2
[source]: Change URL to HTTPS.
[inputs]: Add gtk+.
[configure-flags]: Remove "--disable-gtk3".
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-11 07:03:06 +01:00
ce1ac8eea6
gnu: python2-rpython: Update to 0.2.1.
...
* gnu/packages/python.scm (python2-rpython): Update to 0.2.1.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-11 07:00:22 +01:00
e65acb3124
gnu: python-sympy: Update to 1.1.1.
...
* gnu/packages/python.scm (python-sympy, python2-sympy): Update to 1.1.1.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-11 06:57:00 +01:00
e077e7da7f
gnu: python-sqlparse: Fix syntax error.
...
This is a follow-up to commit 8d688cd27f
2017-11-11 06:40:50 +01:00
8d688cd27f
gnu: python-sqlparse: Update to 0.2.4.
...
* gnu/packages/python.scm (python-sqlparse, python2-sqlparse): Update to
0.2.4.
[arguments]: Don't invoke ‘2to3’.
2017-11-11 05:17:59 +01:00
9629c6b4b2
gnu: cyrus-sasl: Use new home page.
...
* gnu/packages/cyrus-sasl.scm (cyrus-sasl)[home-page]: Update.
2017-11-11 05:17:58 +01:00
11ed4108fb
gnu: methylkit: Use new home page.
...
* gnu/packages/bioinformatics.scm (methylkit)[home-page]: Update.
2017-11-11 05:17:58 +01:00
7c087150ec
gnu: vsearch: Update to 2.6.0.
...
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.6.0.
2017-11-11 09:33:16 +10:00
74c0aeb027
gnu: webkitgtk: Update to 2.18.3 [fixes CVE-2017-{13788,13798,13803}].
...
* gnu/packages/webkit.scm (webkitgtk): Update to 2.18.3.
2017-11-10 12:48:15 -05:00
adf7e69cab
gnu: qemu: Fix CVE-2017-{15038,15268,15289}.
...
* gnu/packages/patches/qemu-CVE-2017-15038.patch,
gnu/packages/patches/qemu-CVE-2017-15268.patch,
gnu/packages/patches/qemu-CVE-2017-15289.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/virtualization.scm (qemu)[source]: Use them.
2017-11-10 12:16:31 -05:00
d4d7d70912
gnu: Fix hunspell-dict-en-* dictionary installation.
...
* gnu/packages/aspell.scm (aspell-word-list)[arguments]: Install the .dic file
for all hunspell dictionaries.
2017-11-10 11:59:09 -05:00
0af4df7e61
gnu: cutadapt: Update to 1.14.
...
* gnu/packages/bioinformatics.scm (cutadapt): Update to 1.14.
2017-11-10 15:32:42 +01:00
ae451b9dc2
gnu: synergy: Fix minor problems with the package definitions.
...
* gnu/packages/synergy.scm (synergy)[source]: Return #t in the snippet.
[arguments]: Let build phases return #t; fix typo in comment.
[home-page]: Change to redirection target.
[description]: Fix typo.
2017-11-10 15:19:06 +01:00
177475cfb5
gnu: password-store: Install passmenu script.
...
* gnu/packages/password-utils (password-store)
[inputs]: Add dmenu and xdotool.
[arguments]<#:phases>['patch-passmenu-path']: New phase.
[arguments]<#:phases>['install-passmenu']: New phase.
2017-11-10 14:22:28 +01:00
011f57695a
gnu: Add Epson escpr printer driver.
...
* gnu/packages/cups.scm (escpr): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-10 13:07:54 +01:00
179b7ac66d
gnu: postgresql@9.6: Update to 9.6.6 [security fixes].
...
This fixes CVE-2017-12172, CVE-2017-15098, CVE-2017-15099.
* gnu/packages/databases.scm (postgresql@9.6): Update to 9.6.6.
2017-11-10 10:24:13 +02:00
74bea6a036
gnu: linux-libre: Update to 4.13.12.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.13.12.
(%linux-libre-hash): Update hash.
2017-11-09 21:11:00 -05:00
4cacbf33a6
gnu: linux-libre@4.9: Update to 4.9.61.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.61.
2017-11-09 21:10:14 -05:00
3a79bd03ff
gnu: linux-libre@4.4: Update to 4.4.97.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.97.
2017-11-09 21:09:34 -05:00
f8071bea91
gnu: linux-libre@4.1: Update to 4.1.46.
...
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.46.
2017-11-09 21:08:51 -05:00
3c3d20c8f3
gnu: libpsl: Update to 0.19.1.
...
* gnu/packages/web.scm (libpsl): Update to 0.19.1.
2017-11-10 02:37:15 +01:00
1d8e73ba67
gnu: postgresql: Update to 10.1 [security fixes].
...
Fixes CVE-2017-12172, CVE-2017-15098 and CVE-2017-15099.
* gnu/packages/databases.scm (postgresql): Update to 10.1.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-10 01:22:53 +01:00
e99f045cc8
gnu: Add r-directlabels.
...
* gnu/packages/statistics.scm (r-directlabels): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-09 23:54:48 +01:00
d3150731a8
gnu: emacs-ahungry-theme: Update to 1.8.0.
...
* gnu/packages/emacs.scm (emacs-ahungry-theme): Update to 1.8.0.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-09 23:54:48 +01:00
f021382be4
gnu: Add nxbelld.
...
* gnu/packages/xdisorg.scm (nxbelld): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-09 23:54:48 +01:00
d8f075c3a3
gnu: %intel-compatible-systems: Re-add variable.
...
This is a follow-up to cfbe7b7f4c
2017-11-09 22:25:48 +02:00
cfbe7b7f4c
gnu: linux: Add linux-libre arm kernel.
...
* Makefile.am (AUX_FILES): Add arm config file.
* gnu/packages/aux-files/linux-libre/4.13-arm.conf: New file.
* gnu/packages/linux.scm (%intel-compatible-systems): Rename to
%linux-compatible-systems and add "armhf-linux".
(linux-libre): Adapt consequently.
The config file for arm is taken from debian armmp kernel. It's a generic
firmware for ARMv7 multiplatform compatible SoCs.
2017-11-09 20:35:11 +01:00
3694a9b33b
gnu: chromaprint: Update to 1.4.2.
...
* gnu/packages/mp3.scm (chromaprint): Update to 1.4.2.
2017-11-09 13:23:39 -05:00
ad9b8987f3
gnu: libwnck: Update to 3.24.1.
...
* gnu/packages/gnome.scm (libwnck): Update to 3.24.1.
2017-11-09 12:17:37 -05:00
da4a707c88
gnu: roary: Update to 3.11.0.
...
* gnu/packages/bioinformatics.scm (roary): Update to 3.11.0.
[inputs]: Add perl-digest-md5-file.
2017-11-09 18:12:32 +10:00
e5f748a6c0
gnu: totem: Enable parallel build.
...
* gnu/packages/gnome.scm (totem)[arguments]: Set #:parallel-build? to #t
implicitly.
2017-11-08 20:43:40 -05:00
8f220b7b41
gnu: tremc: Update to 0.9.0-1.9755b50.
...
* gnu/packages/bittorrent.scm (tremc): Update to 0.9.0-1.9755b50.
[version]: Use git-version.
[source]: Use git-file-name.
2017-11-08 19:32:32 -05:00
ea1f073d73
gnu: slurm: Update to 16.05.11 [fixes CVE-2017-15566].
...
* gnu/packages/parallel.scm (slurm): Update to 16.05.11.
[source]: Use the recommended download URL.
2017-11-08 19:32:31 -05:00
a3dd13ae0e
gnu: rpm: Update to 4.13.0.2 [fixes CVE-2017-{7500,7501}].
...
* gnu/packages/package-management.scm (rpm): Update to 4.13.0.2.
2017-11-08 19:00:07 -05:00
7df4194b16
gnu: python-icalendar: Update to 4.0.0.
...
* gnu/packages/python.scm (python-icalendar): Update to 4.0.0.
2017-11-08 18:36:29 -05:00
03b154f800
gnu: syncthing: Update to 0.14.40.
...
* gnu/packages/syncthing.scm (syncthing): Update to 0.14.40.
[inputs]: Add go-github-com-zillode-notify.
2017-11-08 17:24:02 -05:00
52ff28e4aa
gnu: Add go-github-com-zillode-notify.
...
* gnu/packages/syncthing.scm (go-github-com-zillode-notify): New variable.
2017-11-08 17:24:01 -05:00
4cf6827de3
gnu: go-github-com-audriusbutkevicius-kcp-go: Update to 0.0.0-1.8ae5f52.
...
* gnu/packages/syncthing.scm (go-github-com-audriusbutkevicius-kcp-go):
Update to 0.0.0-1.8ae5f52.
[propagated-inputs]: Add go-github-com-tjfoc-gmsm-sm4.
2017-11-08 17:24:01 -05:00
f44169c2a7
gnu: Add go-github-com-tjfoc-gmsm-sm4.
...
* gnu/packages/syncthing.scm (go-github-com-tjfoc-gmsm-sm4): New variable.
2017-11-08 17:24:01 -05:00
34260a10d7
gnu: miso: Use pypi-uri.
...
* gnu/packages/bioinformatics.scm (miso)[source]: Use pypi-uri.
2017-11-08 17:41:08 +01:00
e5c17b8d9d
gnu: Add r-vcd.
...
* gnu/packages/cran.scm (r-vcd): New variable.
2017-11-08 17:34:35 +01:00
018cf270a3
gnu: Add r-laeken.
...
* gnu/packages/cran.scm (r-laeken): New variable.
2017-11-08 17:34:11 +01:00
697e341e74
gnu: fastcap: Use texlive-tiny.
...
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Replace texlive with
texlive-tiny.
[arguments]: Fix indentation; set HOME in "make-pdf" phase to avoid font
errors with texlive-tiny.
2017-11-08 17:15:24 +01:00
7e3aca2b78
gnu: librecad: Fix build.
...
* gnu/packages/engineering.scm (librecad)[arguments]: Add phase
"patch-boost-error".
2017-11-08 16:21:54 +01:00
b72b42cf02
gnu: Add r-performanceanalytics.
...
* gnu/packages/cran.scm (r-performanceanalytics): New variable.
2017-11-08 16:21:54 +01:00
3699383e6f
gnu: Add r-xts.
...
* gnu/packages/cran.scm (r-xts): New variable.
2017-11-08 16:21:53 +01:00
5a80c15c14
gnu: Remove "open source" from descriptions.
...
All software in Guix is Free Software.
* gnu/packages/aidc.scm (libdmtx)[description]: Remove "open source" string.
* gnu/packages/firmware.scm (seabios)[description]: Likewise.
* gnu/packages/libupnp.scm (libupnp)[description]: Likewise.
* gnu/packages/maths.scm (cubicle)[description]: Likewise.
* gnu/packages/mingw.scm (mingw-w64)[description]: Likewise.
* gnu/packages/game-development.scm (openmw)[description]: Likewise.
[synopsis]: Remove "Free software".
2017-11-08 16:21:53 +01:00
88fb156288
gnu: pcb: Update to 4.0.2.
...
* gnu/packages/engineering.scm (pcb): Update to 4.0.2.
[arguments]: Add build phase "fix-check-for-display".
2017-11-08 16:21:53 +01:00
c8b38f8ea6
gnu: time: Update license.
...
* gnu/packages/time.scm (time)[license]: Change to gpl3+.
2017-11-08 10:52:09 +02:00
dd00e0919f
gnu: time: Update to 1.8.
...
* gnu/packages/time.scm (time): Update to 1.8.
[arguments]: Remove custom 'configure phase.
2017-11-08 10:49:19 +02:00
12a24ee878
gnu: Add glusterfs.
...
* gnu/packages/file-systems.scm (glusterfs): New variable.
2017-11-07 23:32:46 +01:00
2e648d2bc4
gnu: r-prabclus: Update description.
...
* gnu/packages/statistics.scm (r-prabclus)[description]: Fix grammar errors.
2017-11-07 23:32:46 +01:00
14e5f6b20a
gnu: r-fdrtool: Update description.
...
* gnu/packages/statistics.scm (r-fdrtool)[description]: Use "@dfn" syntax.
2017-11-07 23:32:46 +01:00
738dda8330
gnu: Add r-bbmle.
...
* gnu/packages/cran.scm (r-bbmle): New variable.
2017-11-07 23:32:46 +01:00
7b0569c0a9
gnu: Add r-rsofia.
...
* gnu/packages/cran.scm (r-rsofia): New variable.
2017-11-07 23:32:46 +01:00
c49102ecca
gnu: Add r-hitc.
...
* gnu/packages/bioinformatics.scm (r-hitc): New variable.
2017-11-07 23:32:45 +01:00
30eb4e37c8
gnu: Add r-fithic.
...
* gnu/packages/bioinformatics.scm (r-fithic): New variable.
2017-11-07 23:32:45 +01:00
fbf5440637
gnu: Add r-sushi.
...
* gnu/packages/bioinformatics.scm (r-sushi): New variable.
2017-11-07 23:32:45 +01:00
9232cac410
gnu: Add r-vioplot.
...
* gnu/packages/cran.scm (r-vioplot): New variable.
2017-11-07 23:32:45 +01:00
3a22732cd8
gnu: Add r-sm.
...
* gnu/packages/cran.scm (r-sm): New variable.
2017-11-07 23:32:45 +01:00
2e4ce60e7c
gnu: Add r-gwascat.
...
* gnu/packages/bioinformatics.scm (r-gwascat): New variable.
2017-11-07 23:32:44 +01:00
4272000661
gnu: Add r-gviz.
...
* gnu/packages/bioinformatics.scm (r-gviz): New variable.
2017-11-07 23:32:44 +01:00
794ff347a9
gnu: Add r-gqtlstats.
...
* gnu/packages/bioinformatics.scm (r-gqtlstats): New variable.
2017-11-07 23:32:44 +01:00
7fd5f60b8f
gnu: Add r-hardyweinberg.
...
* gnu/packages/cran.scm (r-hardyweinberg): New variable.
2017-11-07 23:32:44 +01:00
10e16fa93d
gnu: Add r-mice.
...
* gnu/packages/cran.scm (r-mice): New variable.
2017-11-07 23:32:44 +01:00
66c39102e5
gnu: Add r-ldblock.
...
* gnu/packages/bioinformatics.scm (r-ldblock): New variable.
2017-11-07 23:32:44 +01:00
15f98b0d23
gnu: Add r-erma.
...
* gnu/packages/bioinformatics.scm (r-erma): New variable.
2017-11-07 23:32:43 +01:00
421c68e3f7
gnu: Add r-homo-sapiens.
...
* gnu/packages/bioinformatics.scm (r-homo-sapiens): New variable.
2017-11-07 23:32:43 +01:00
b52a866d14
gnu: Add r-org-hs-eg-db.
...
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): New variable.
2017-11-07 23:32:43 +01:00
dd5fc8b78e
gnu: Add r-snpstats.
...
* gnu/packages/bioinformatics.scm (r-snpstats): New variable.
2017-11-07 23:32:43 +01:00
e2b927993e
gnu: Add r-gqtlbase.
...
* gnu/packages/bioinformatics.scm (r-gqtlbase): New variable.
2017-11-07 23:32:43 +01:00
96a392a0b2
gnu: Add r-gprofiler.
...
* gnu/packages/bioinformatics.scm (r-gprofiler): New variable.
2017-11-07 23:32:42 +01:00
60faf94597
gnu: Add r-ggbio.
...
* gnu/packages/bioinformatics.scm (r-ggbio): New variable.
2017-11-07 23:32:42 +01:00
7af1f40373
gnu: Add r-biovizbase.
...
* gnu/packages/bioinformatics.scm (r-biovizbase): New variable.
2017-11-07 23:32:42 +01:00
2f6f61fd8e
gnu: Add r-organismdbi.
...
* gnu/packages/bioinformatics.scm (r-organismdbi): New variable.
2017-11-07 23:32:42 +01:00
aa30ab5aee
gnu: Add r-ensembldb.
...
* gnu/packages/bioinformatics.scm (r-ensembldb): New variable.
2017-11-07 23:32:42 +01:00
763e98103a
gnu: Add r-annotationfilter.
...
* gnu/packages/bioinformatics.scm (r-annotationfilter): New variable.
2017-11-07 23:32:42 +01:00
04e2a2e969
gnu: Add r-dirichletmultinomial.
...
* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): New variable.
2017-11-07 23:32:41 +01:00
3af149f524
gnu: Add r-complexheatmap.
...
* gnu/packages/bioinformatics.scm (r-complexheatmap): New variable.
2017-11-07 23:32:41 +01:00
902fb15d92
gnu: Add r-genomicfiles.
...
* gnu/packages/bioinformatics.scm (r-genomicfiles): New variable.
2017-11-07 23:32:41 +01:00
cd215877a0
gnu: bdftopcf: Update to 1.1.
...
* gnu/packages/xorg.scm (bdftopcf): Update to 1.1.
[native-inputs]: Change from LIBXFONT to LIBXFONT2.
2017-11-07 23:29:23 +01:00
d469bc09bd
gnu: feh: Update to 2.22.2.
...
* gnu/packages/image-viewers.scm (feh): Update to 2.22.2.
2017-11-07 22:16:27 +01:00
625492ee1a
gnu: gcc-4.7: Resurrect building with gcc-5.4.0.
...
* gnu/packages/patches/gcc-4-compile-with-gcc-5.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gcc.scm (gcc-4.7): Use it.
2017-11-07 22:03:51 +01:00
a67f094671
gnu: Add websockify.
...
* gnu/packages/web.scm (websockify): New variable.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07 21:56:42 +01:00
75d342ffa9
gnu: Add python-networkx2.
...
* gnu/packages/python.scm (python-networkx2, python2-networkx2): New variables.
* gnu/local.mk (dist_patch_DATA): Register 'python-networkx2-reproducible-build.patch'.
* gnu/packages/patches/python-networkx2-reproducible-build.patch: New file.
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07 21:17:20 +01:00
2b295f5a2f
gnu: Add python-pydot.
...
* gnu/packages/graphviz.scm (python-pydot, python2-pydot): New variables.
Modified-by: Marius Bakke <mbakke@fastmail.com>
2017-11-07 21:03:15 +01:00
38ad27da80
gnu: mercurial: Update to 4.4.1.
...
* gnu/packages/version-control.scm (mercurial): Update to 4.4.1.
2017-11-07 20:23:29 +01:00
4a30c1c0e2
gnu: vim: Update to 8.0.1274 [fixes CVE-2017-1000382].
...
* gnu/packages/vim.scm (vim): Update to 8.0.1274.
2017-11-07 20:21:46 +01:00
31a963fe80
gnu: notmuch: Update to 0.25.2.
...
* gnu/packages/mail.scm (notmuch): Update to 0.25.2.
2017-11-07 20:01:03 +01:00
9129804230
gnu: psm: Only use as an input on supported-systems.
...
Syntax help supplied by bavier@member.fsf.org
* gnu/packages/linux.scm (libfabric)[inputs]: Only use psm as an input
on systems where psm is supported.
* gnu/packages/mpi.scm (openmpi)[inputs]: Same.
2017-11-07 20:41:08 +02:00
b516b78002
gnu: psm: Limit supported systems.
...
* gnu/packages/linux.scm (psm)[supported-systems]: New field, limit to
i686-linux and x86_64-linux.
2017-11-07 20:41:05 +02:00
174807b9a4
gnu: gnupg: Update to 2.2.2.
...
* gnu/packages/gnupg.scm (gnupg): Update to 2.2.2.
2017-11-07 19:34:29 +02:00
2f17187ff3
gnu: mediainfo: Change order of custom phases.
...
* gnu/packages/video.scm (mediainfo)[arguments]: Change to the build
directory before executing the autogen script.
2017-11-07 19:34:25 +02:00
6541673354
gnu: linux: Fix kconfig selection.
...
* gnu/packages/linux.scm (make-linux-libre): When cross-compiling,
"kconfig" field is in native-inputs variable. So config is always #f
when cross-compiling linux.
2017-11-07 18:16:02 +01:00
f4433d09a1
gnu: openmpi: Add dependency on PSM.
...
* gnu/packages/mpi.scm (openmpi)[inputs]: Add PSM.
2017-11-07 18:09:13 +01:00
7bc05ef0ac
gnu: libfabric: Add dependency on PSM.
...
* gnu/packages/linux.scm (libfabric)[inputs]: Add PSM.
2017-11-07 18:09:13 +01:00
fd23d259cd
gnu: Add PSM.
...
* gnu/packages/linux.scm (psm): New variable.
* gnu/packages/patches/psm-arch.patch,
gnu/packages/patches/psm-ldflags.patch,
gnu/packages/patches/psm-repro.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
2017-11-07 18:09:13 +01:00
63b7fbe1bb
gnu: diffoscope: Update to 88.
...
* gnu/packages/package-management.scm (diffoscope): Update to 88.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-07 18:09:13 +01:00
db0164b21f
gnu: awesome: Update to 4.2.
...
* gnu/packages/wm.scm (awesome): Update to 4.2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-07 18:09:13 +01:00
51bc8357e8
gnu: gdm: Add configure flags for better defaults.
...
* gnu/packages/gnome.scm (gdm)[arguments]<#:configure-flags>: Add
--with-initial-vt=7 and --enable-gdm-xsession.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-07 18:09:13 +01:00
950d8e5d8c
gnu: gdm: Fix config file path.
...
* gnu/packages/gnome.scm (gdm)[arguments]<#:phases>: Fix the
'pre-configure phase so that GDM finds its config file.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-11-07 18:09:13 +01:00
ad54924285
gnu: expect: Change home-page to http://expect.sourceforge.net/ .
...
* gnu/packages/tcl.scm (expect): Change home-page to
http://expect.sourceforge.net/ .
2017-11-07 18:50:46 +03:00
e160aa1f81
gnu: Add r-gage.
...
* gnu/packages/bioinformatics.scm (r-gage): New variable.
2017-11-07 12:39:51 +01:00
3121814ef1
gnu: Add r-keggrest.
...
* gnu/packages/bioinformatics.scm (r-keggrest): New variable.
2017-11-07 12:39:51 +01:00
a9540107c6
gnu: antlr3-3.3: Prettify build phases.
...
* gnu/packages/java.scm (antlr3-3.3)[arguments]: Prettify build phases
"bin-install" and "generate-grammar".
2017-11-07 12:39:50 +01:00
9ecc4c69eb
gnu: r-servr: Update to 0.8.
...
* gnu/packages/web.scm (r-servr): Update to 0.8.
2017-11-07 08:15:45 +01:00
60ec9da3aa
gnu: r-tidyselect: Update to 0.2.3.
...
* gnu/packages/statistics.scm (r-tidyselect): Update to 0.2.3.
2017-11-07 08:15:44 +01:00
baa00ee90d
gnu: r-msnbase: Update to 2.4.0.
...
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.4.0.
[propagated-inputs]: Add r-lattice; remove r-reshape2.
2017-11-07 08:15:44 +01:00
39d9098def
gnu: r-mutationalpatterns: Update to 1.4.0.
...
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.4.0.
[propagated-inputs]: Add r-cowplot, r-ggdendro, and r-s4vectors.
2017-11-07 08:15:44 +01:00
14b3c71911
gnu: r-annotationhub: Update to 2.10.0.
...
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.10.0.
[propagated-inputs]: Add r-curl.
2017-11-07 08:15:44 +01:00
15ca195979
gnu: r-mzr: Remove bundled copy of boost.
...
* gnu/packages/bioinformatics.scm (r-mzr)[source]: Remove boost source.
[arguments]: Add build phase "use-system-boost" to link with our boost
package and avoid building the bundled sources.
2017-11-07 08:15:44 +01:00
34b9675449
gnu: r-mzr: Update to 2.12.0.
...
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.12.0.
2017-11-07 08:15:43 +01:00
b500dbcdef
gnu: r-mzid: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.16.0.
2017-11-07 08:15:43 +01:00
eeaa6967f9
gnu: r-chipseq: Update to 1.28.0.
...
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.28.0.
[propagated-inputs]: Add r-lattice.
2017-11-07 08:15:43 +01:00
158b6743dc
gnu: r-genomicfeatures: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.30.0.
[propagated-inputs]: Add r-rmysql.
2017-11-07 08:15:43 +01:00
74248d22a0
gnu: Add r-rmysql.
...
* gnu/packages/databases.scm (r-rmysql): New variable.
2017-11-07 08:15:43 +01:00
4dd469ef6d
gnu: r-rtracklayer: Update to 1.38.0.
...
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.38.0.
[arguments]: Adjust patch to use system zlib.
2017-11-07 08:15:42 +01:00
a044c7f4c4
gnu: r-biocparallel: Update to 1.12.0.
...
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.12.0.
[propagated-inputs]: Add r-bh.
2017-11-07 08:15:42 +01:00
42e11d3301
gnu: r-biomart: Update to 2.34.0.
...
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.34.0.
[propagated-inputs]: Add r-progress and r-stringr.
2017-11-07 08:15:42 +01:00
010ab2ffd2
gnu: r-edger: Update to 3.20.1.
...
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.20.1.
[propagated-inputs]: Add r-rcpp.
2017-11-07 08:15:42 +01:00
eb3f5cc76a
gnu: r-gostats: Update to 2.44.0.
...
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.44.0.
[propagated-inputs]: Add r-rgraphviz.
2017-11-07 08:15:41 +01:00
2404cc4283
gnu: r-category: Update to 2.44.0.
...
* gnu/packages/bioinformatics.scm (r-category): Update to 2.44.0.
[propagated-inputs]: Remove r-rsqlite; add r-dbi.
2017-11-07 08:15:41 +01:00
65a8cd6676
gnu: r-lubridate: Update to 1.7.1.
...
* gnu/packages/statistics.scm (r-lubridate): Update to 1.7.1.
[propagated-inputs]: Add r-rcpp.
2017-11-07 08:15:41 +01:00
689edf1153
gnu: r-preprocesscore: Update to 1.40.0.
...
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.40.0.
2017-11-07 08:15:41 +01:00
e7f680f071
gnu: r-r-utils: Update to 2.6.0.
...
* gnu/packages/statistics.scm (r-r-utils): Update to 2.6.0.
2017-11-07 08:15:41 +01:00
ecfe98a17a
gnu: r-openssl: Update to 0.9.8.
...
* gnu/packages/statistics.scm (r-openssl): Update to 0.9.8.
2017-11-07 08:15:40 +01:00
aced057fbc
gnu: r-rlang: Update to 0.1.4.
...
* gnu/packages/statistics.scm (r-rlang): Update to 0.1.4.
2017-11-07 08:15:40 +01:00
1be0f53664
gnu: r-vsn: Update to 3.46.0.
...
* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.46.0.
[propagated-inputs]: Remove r-hexbin.
2017-11-07 08:15:40 +01:00
007424b5a5
gnu: r-motifrg: Rename input label.
...
* gnu/packages/bioinformatics.scm (r-motifrg)[propagated-inputs]:
Rename label of r-bsgenome-hsapiens-ucsc-hg19.
2017-11-07 08:15:40 +01:00
ce59d62519
gnu: r-motifrg: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.22.0.
2017-11-07 08:15:40 +01:00
98791c25c8
gnu: r-qvalue: Update to 2.10.0.
...
* gnu/packages/bioinformatics.scm (r-qvalue): Update to 2.10.0.
2017-11-07 08:15:39 +01:00
87fa5aface
gnu: r-fastseq: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-fastseq): Update to 1.24.0.
2017-11-07 08:15:39 +01:00
1567c8d91b
gnu: r-interactivedisplaybase: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to
1.16.0.
2017-11-07 08:15:39 +01:00
0096127974
gnu: r-edaseq: Update to 2.12.0.
...
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.12.0.
2017-11-07 08:15:39 +01:00
22752bef3b
gnu: r-msnid: Update to 1.11.0.
...
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.11.0.
2017-11-07 08:15:38 +01:00
8140f680ad
gnu: r-deseq: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.30.0.
2017-11-07 08:15:38 +01:00
531e80903f
gnu: r-aroma-light: Update to 3.8.0.
...
* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.8.0.
2017-11-07 08:15:38 +01:00
a998c9a464
gnu: r-pcamethods: Update to 1.70.0.
...
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.70.0.
2017-11-07 08:15:38 +01:00
8a8138d248
gnu: r-affyio: Update to 1.48.0.
...
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.48.0.
2017-11-07 08:15:38 +01:00
dad5f83817
gnu: r-affy: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.56.0.
2017-11-07 08:15:37 +01:00
9a665dfb6f
gnu: r-protgenerics: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.10.0.
2017-11-07 08:15:37 +01:00
617700895b
gnu: r-seqlogo: Update to 1.44.0.
...
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.44.0.
2017-11-07 08:15:37 +01:00
e127c918f8
gnu: r-genomation: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.10.0.
[propagated-inputs]: Remove r-rhtslib.
[inputs]: Remove zlib.
2017-11-07 08:15:37 +01:00
e6ce4bf00d
gnu: r-impute: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.52.0.
2017-11-07 08:15:37 +01:00
0f948b116b
gnu: r-seqpattern: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.10.0.
2017-11-07 08:15:36 +01:00
e67850b40d
gnu: r-bsgenome: Update to 1.46.0.
...
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.46.0.
2017-11-07 08:15:36 +01:00
d13a3fea7e
gnu: r-topgo: Update to 2.30.0.
...
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.30.0.
2017-11-07 08:15:36 +01:00
aeb73879f6
gnu: r-graph: Update to 1.56.0.
...
* gnu/packages/bioinformatics.scm (r-graph): Update to 1.56.0.
2017-11-07 08:15:36 +01:00
96fb465174
gnu: r-genomicalignments: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.0.
2017-11-07 08:15:35 +01:00
6fcbed7329
gnu: r-summarizedexperiment: Update to 1.8.0.
...
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.8.0.
2017-11-07 08:15:35 +01:00
cb0a9a7493
gnu: r-delayedarray: Update to 0.4.1.
...
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.4.1.
2017-11-07 08:15:35 +01:00
f8068419a6
gnu: r-rsamtools: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.30.0.
2017-11-07 08:15:35 +01:00
b719435ebb
gnu: r-biostrings: Update to 2.46.0.
...
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.46.0.
2017-11-07 08:15:35 +01:00
0f8d98f294
gnu: r-annotationdbi: Update to 1.40.0.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.40.0.
2017-11-07 08:15:34 +01:00
ca52123611
gnu: r-biobase: Update to 2.38.0.
...
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.38.0.
2017-11-07 08:15:34 +01:00
aa5c1f61f1
gnu: r-genomicranges: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.30.0.
2017-11-07 08:15:34 +01:00
2b6ae8bfd5
gnu: r-xvector: Update to 0.18.0.
...
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.18.0.
2017-11-07 08:15:34 +01:00
f642c0e4c7
gnu: r-limma: Update to 3.34.0.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.34.0.
2017-11-07 08:15:33 +01:00
7f1bac3528
gnu: r-variantannotation: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.24.0.
2017-11-07 08:15:33 +01:00
8aab0235e0
gnu: r-genomeinfodb: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.14.0.
2017-11-07 08:15:33 +01:00
9e482c2069
gnu: r-iranges: Update to 2.12.0.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.12.0.
2017-11-07 08:15:33 +01:00
41f0f94976
gnu: r-s4vectors: Update to 0.16.0.
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* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.16.0.
2017-11-07 08:15:33 +01:00
2167eafc1d
gnu: r-biocstyle: Update to 2.6.0.
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* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.6.0.
2017-11-07 08:15:32 +01:00
3241461670
gnu: r-biocinstaller: Update to 1.28.0.
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* gnu/packages/bioinformatics.scm (r-biocinstaller): Update to 1.28.0.
2017-11-07 08:15:32 +01:00
d61fc4e104
gnu: r-biocgenerics: Update to 0.24.0.
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* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.24.0.
2017-11-07 08:15:32 +01:00
704fe4d115
gnu: r-grohmm: Update to 1.12.0.
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* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.12.0.
2017-11-07 08:15:32 +01:00
Ricardo Wurmus