57dc9b58db
gnu: r-genomationdata: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.10.0.
2017-11-18 11:18:39 +01:00
9ef9c6489f
gnu: Remove duplicates from (gnu packages statistics).
...
* gnu/packages/statistics.scm (r-cluster, r-codetools, r-kernsmooth): Remove
duplicates.
2017-11-18 11:18:39 +01:00
9c2d0a0369
gnu: Remove duplicate from (gnu packages gnupg).
...
* gnu/packages/gnupg.scm (perl-gnupg-interface): Remove duplicate.
2017-11-18 11:18:39 +01:00
90dbd984f8
gnu: Remove duplicate from (gnu packages bioinformatics).
...
* gnu/packages/bioinformatics.scm (r-annotationfilter): Remove duplicate.
2017-11-18 11:18:39 +01:00
c151b0b633
gnu: Remove duplicate from (gnu packages cran).
...
* gnu/packages/cran.scm (r-bbmle): Remove duplicate.
2017-11-18 11:18:38 +01:00
4982d0ac41
gnu: Remove duplicates from (gnu packages java).
...
* gnu/packages/java.scm (java-commons-net, java-asm): Remove duplicates.
2017-11-18 11:18:38 +01:00
676507e388
gnu: r-org-hs-eg-db: Clarify description.
...
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db)[description]: Clarify.
2017-11-18 11:18:38 +01:00
d595fed33d
gnu: r-org-hs-eg-db: Update to 3.5.0.
...
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.5.0.
2017-11-18 11:18:37 +01:00
ccedfd3a43
gnu: r-org-hs-eg-db: Remove duplicate package definition.
...
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Remove duplicate variable.
2017-11-18 11:18:37 +01:00
b9f23702eb
gnu: linux-libre: Remove Tegra DRM from arm configuration.
...
The code fails to compile on armhf using our configuration.
See <https://patchwork.kernel.org/patch/9688615/ > for details.
* gnu/packages/aux-files/linux-libre/4.14-arm.conf: Remove Tegra DRM support.
2017-11-18 04:31:32 -05:00
f10120d40b
gnu: linux-libre: Remove Nouveau from arm configuration.
...
The Nouveau code fails to compile on armhf with our configuration.
* gnu/packages/aux-files/linux-libre/4.14-arm.conf: Disable Nouveau.
2017-11-18 04:30:45 -05:00
b3b07df403
gnu: dino: Update to 0.0-2-2a514d096.
...
* gnu/packages/messaging.scm (dino): Update to 0.0-2-2a514d096.
[source]: Do not fetch libsignal-protocol-c submodule.
[arguments]: Add phase "unpack-sources" to unpack our sources for
libsignal-protocol-c.
[native-inputs]: Add "libsignal-protocol-c-source".
2017-11-18 07:44:27 +01:00
d8e257113c
build-system/go: Don't let Go executables refer to the Go compiler.
...
* guix/build/go-build-system.scm (remove-store-reference, remove-go-references):
New procedures.
(%standard-phases): Add 'remove-go-references' phase.
* guix/build-system/go.scm (go-build): Add allow-go-reference? key.
2017-11-17 18:25:20 -05:00
25811886f1
gnu: vim: Update to 8.0.1300.
...
* gnu/packages/vim.scm (vim): Update to 8.0.1300.
2017-11-17 18:25:16 -05:00
40f372af3e
gnu: tuxguitar: Build with icedtea-8.
...
* gnu/packages/music.scm (tuxguitar)[arguments]: Use icedtea-8.
2017-11-17 23:18:50 +01:00
8710d4dd73
gnu: java-swt: Update to 4.7.1a.
...
* gnu/packages/java.scm (java-swt): Update to 4.7.1a.
[arguments]: Build with icedtea-8.
[inputs]: Remove "icecat".
2017-11-17 23:18:50 +01:00
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
45eee2dd62
doc: Write "file system" instead of "partition" as appopriate.
...
* doc/guix.texi (Preparing for Installation): Write "file system" instead
of "partition" as appopriate.
2017-11-17 23:04:52 +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
d5ce7bcfa2
workers: Display backtrace in pre-unwind handler.
...
* guix/workers.scm (worker-thunk): Add (const #f) as the 'catch'
handler, and move previous handler as pre-unwind handler. Protect
against 'make-stack' returning #f.
2017-11-17 10:47:56 +01:00
19fd7229bc
workers: Add test with exceptions.
...
* tests/workers.scm ("exceptions"): New test.
2017-11-17 10:47:49 +01:00
232b3d3101
workers: 'pool-idle?' returns true only if the workers are idle.
...
Fixes <https://bugs.gnu.org/28779 >.
Reported by Eric Bavier <bavier@cray.com>.
* guix/workers.scm (<pool>)[busy]: New field.
(worker-thunk): Add #:idle and #:busy and use them.
(make-pool): Pass #:busy and #:idle to 'worker-thunk'. Pass a 'busy'
value to '%make-pool'.
* guix/workers.scm (pool-idle?): Check whether 'pool-busy' returns zero
and adjust docstring.
2017-11-17 10:10:30 +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
304a53f67a
ui: Add source file name to the package search metrics.
...
* guix/ui.scm (%package-metrics): Include 'package-location'. Increase
score of the other fields.
2017-11-16 08:45:15 +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
7482b98120
cve: Use 'http-fetch/cached' instead of having custom caching.
...
That way CVE fetching benefits from 'If-Modified-Since' handling.
* guix/http-client.scm (http-fetch/cached): Add #:write-cache and
#:cache-miss parameters and honor them.
* guix/cve.scm (%current-year-ttl, %past-year-ttl): Reduce.
(call-with-cve-port): Remove.
(write-cache): New procedure.
(fetch-vulnerabilities): Rewrite in terms of 'http-fetch/cached'.
2017-11-16 08:45:15 +01:00
866f37fb7e
download: Improve efficiency of 'write-request' over TLS.
...
This is another instance of <https://bugs.gnu.org/22966 >.
The Microsoft-IIS/7.5 server at static.nvd.nist.gov would sometimes hang
when receiving our requests byte by byte.
* guix/build/download.scm (tls-wrap) [!guile-2.0]: Add 'setvbuf' call.
2017-11-16 08:45:14 +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
Ricardo Wurmus