27d59d8bf5
gnu: Add go-github-com-gxed-hashland-keccakpg.
...
* gnu/packages/golang.scm (go-github-com-gxed-hashland-keccakpg): New variable.
2018-10-24 12:13:49 +02:00
15272a5053
gnu: Add go-github-com-mr-tron-base58.
...
* gnu/packages/golang.scm (go-github-com-mr-tron-base58): New variable.
2018-10-24 12:13:49 +02:00
71f3680499
gnu: Add go-github-com-libp2p-go-libp2p-crypto.
...
* gnu/packages/golang.scm (go-github-com-libp2p-go-libp2p-crypto): New variable.
2018-10-24 12:13:49 +02:00
ff2d11c3ce
gnu: Add go-github-com-minio-sha256-simd.
...
* gnu/packages/golang.scm (go-github-com-minio-sha256-simd): New variable.
2018-10-24 12:13:49 +02:00
d5599afadf
gnu: Add go-github-com-btcsuite-btcd-btcec.
...
* gnu/packages/golang.scm (go-github-com-btcsuite-btcd-btcec): New variable.
2018-10-24 12:13:48 +02:00
171c3259fc
gnu: Add go-github-com-btcsuite-btclog.
...
* gnu/packages/golang.scm (go-github-com-btcsuite-btclog): New variable.
2018-10-24 12:13:48 +02:00
6a95e3a3a4
gnu: Add go-github-com-davecgh-go-spew.
...
* gnu/packages/golang.scm (go-github-com-davecgh-go-spew): New variable.
2018-10-24 12:13:48 +02:00
386bd7ba39
gnu: Add go-github-com-libp2p-go-flow-metrics.
...
* gnu/packages/golang.scm (go-github-com-libp2p-go-flow-metrics): New variable.
2018-10-24 12:13:22 +02:00
48a279ee14
gnu: go-golang-org-x-crypto-union: Wrap all crypto packages.
...
* gnu/packages/golang.scm (go-golang-org-x-crypto-union): Include
go-golang-org-x-crypto-ed25519, go-golang-org-x-crypto-ripemd160,
go-golang-org-x-crypto-blake2s, go-golang-org-x-crypto-sha3 in union.
2018-10-24 12:13:22 +02:00
19789c8b91
gnu: Add go-golang-org-x-crypto-sha3.
...
* gnu/packages/golang.scm (go-golang-org-x-crypto-sha3): New variable.
2018-10-24 12:13:22 +02:00
6fa257cca7
gnu: Add go-golang-org-x-crypto-blake2s.
...
* gnu/packages/golang.scm (go-golang-org-x-crypto-blake2s): New variable.
2018-10-24 12:13:22 +02:00
a9010ead4c
gnu: Add go-golang-org-x-crypto-ripemd160.
...
* gnu/packages/golang.scm (go-golang-org-x-crypto-ripemd160): New variable.
2018-10-24 12:13:21 +02:00
7eb0ad380b
gnu: Add go-golang-org-x-crypto-ed25519.
...
* gnu/packages/golang.scm (go-golang-org-x-crypto-ed25519): New variable.
2018-10-24 12:13:21 +02:00
830dc25176
gnu: Move go-golang-org-x-crypto-union from syncthing.scm to golang.scm
...
* gnu/packages/syncthing.scm (go-golang-org-x-crypto-union): Delete.
* gnu/packages/golang.scm (go-golang-org-x-crypto-union): Add.
2018-10-24 12:13:21 +02:00
5787e15230
gnu: Move go-github-com-gogo-protobuf* from syncthing.scm to golang.scm
...
* gnu/packages/syncthing.scm (go-github-com-gogo-protobuf,
go-github-com-gogo-protobuf-protoc-gen-gogo,
go-github-com-gogo-protobuf-union): Delete.
* gnu/packages/golang.scm (go-github-com-gogo-protobuf,
go-github-com-gogo-protobuf-protoc-gen-gogo,
go-github-com-gogo-protobuf-union): Add.
2018-10-24 10:46:05 +02:00
569adffe4b
gnu: pcsc-lite: Update to 1.8.24.
...
* gnu/packages/security-token.scm (pcsc-lite): Update to 1.8.24.
2018-10-24 05:59:36 +02:00
716cd19ad2
gnu: loksh: Update to 6.4.
...
* gnu/packages/shells.scm (loksh): Update to 6.4.
[inputs]: Add ncurses.
2018-10-24 05:59:36 +02:00
e5d757709a
gnu: loksh: Don't use unstable tarball.
...
* gnu/packages/shells.scm (loksh)[source]: Use GIT-FETCH and GIT-FILE-NAME.
2018-10-24 05:59:35 +02:00
d0d3ed6dfc
gnu: tinc: Update to 1.0.35 [fixes CVE-2018-{16737,16738,16758}].
...
* gnu/packages/vpn.scm (tinc): Update to 1.0.35.
2018-10-24 05:59:35 +02:00
ce7ceef37f
gnu: linux-libre: Update to 4.19.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.19.
(%linux-libre-hash): Update hash.
(%linux-libre-4.18-patches): Rename to ...
(%linux-libre-4.19-patches): ... this, and remove a patch that is
no longer needed.
(linux-libre, linux-libre-arm-generic, linux-libre-arm-omap2plus):
Use %linux-libre-4.19-patches instead of %linux-libre-4.18-patches.
* gnu/packages/aux-files/linux-libre/4.18-arm.conf,
gnu/packages/aux-files/linux-libre/4.18-arm64.conf,
gnu/packages/aux-files/linux-libre/4.18-i686.conf,
gnu/packages/aux-files/linux-libre/4.18-x86_64.conf: Remove files.
* gnu/packages/aux-files/linux-libre/4.19-arm.conf,
gnu/packages/aux-files/linux-libre/4.19-arm64.conf,
gnu/packages/aux-files/linux-libre/4.19-i686.conf,
gnu/packages/aux-files/linux-libre/4.19-x86_64.conf: New files.
* Makefile.am (AUX_FILES): Adjust accordingly.
2018-10-23 22:57:14 -04:00
d9bcdfce29
gnu: mongodb: Use INVOKE.
...
* gnu/packages/databases.scm (mongodb)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-10-24 04:56:23 +02:00
94617bddb0
gnu: libbytesize: Update to 1.4.
...
* gnu/packages/c.scm (libbytesize): Update to 1.4.
[source]: Parametrise.
2018-10-24 04:56:23 +02:00
50f5aa4b9e
gnu: xmlsec: Update to 1.2.27.
...
* gnu/packages/xml.scm (xmlsec): Update to 1.2.27.
[source]: Don't rely on NAME.
2018-10-24 04:56:23 +02:00
0ba0ab814a
gnu: Add wavemon.
...
* gnu/packages/hardware.scm (wavemon): New public variable.
2018-10-24 03:58:20 +02:00
d78587edca
gnu: icecat: Add fixes from mozilla-esr60 [security fixes].
...
Includes fixes for CVE-2018-12389, CVE-2018-12390, CVE-2018-12391,
CVE-2018-12392, CVE-2018-12393, CVE-2018-12395, CVE-2018-12396, and
CVE-2018-12397.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected changesets from the
upstream mozilla-esr60 repository. Relabel some previously existing patches
to reflect CVE assignments.
2018-10-23 19:41:47 -04:00
b4237a6ec0
gnu: emacs-nov-el: Update to 0.2.6.
...
* gnu/packages/emacs.scm (emacs-nov-el): Update to 0.2.6.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-23 23:58:39 +02:00
12995856e2
gnu: libssh: Fetch the source code more efficiently.
...
* gnu/packages/ssh.scm (libssh)[source]: Use the git:// protocol.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-23 23:58:39 +02:00
b55697fbb4
gnu: Add r-aspi.
...
* gnu/packages/cran.scm (r-aspi): New variable.
Signed-off-by: Gábor Boskovits <boskovits@gmail.com>
2018-10-23 23:20:13 +02:00
d89872f955
gnu: sbcl-parse-float: Remove comment about license.
...
* gnu/packages/lisp.scm (sbcl-parse-float): The license really is public domain.
2018-10-23 20:36:58 +02:00
bf076d8ba6
gnu: Add libstatgrab.
...
* gnu/packages/lxqt.scm (libstatgrab): New variable.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-23 22:39:09 +08:00
64fac507dd
gnu: Add libdbusmenu-qt.
...
* gnu/packages/lxqt.scm (libdbusmenu-qt): New variable.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-23 22:23:49 +08:00
d58aefdf06
gnu: lxqt.scm: Sort packages alphabetically.
...
* gnu/packages/lxqt.scm: Sort packages alphabetically.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-23 21:37:48 +08:00
088096aa0e
gnu: lxqt-build-tools: Update download URL and home page URL.
...
* gnu/packages/lxqt.scm (lxqt-build-tools)
[source]: Update download URL to the 'lxqt' repository.
[home-page]: Use HTTPS.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-23 21:33:45 +08:00
70c488f8dd
gnu: lxqt-session: Update to 0.13.0.
...
* gnu/packages/lxqt.scm (lxqt-session): Update to 0.13.0.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-23 21:29:55 +08:00
f0ac761f95
gnu: grammalecte: Update home page.
...
* gnu/packages/dictionaries.scm (grammalecte)[home-page]: Update URL.
2018-10-23 09:59:16 +02:00
a89f731b15
gnu: Xiph: Use HTTPS URLs.
...
* gnu/packages/xiph.scm (libogg, libvorbis, libtheora, speex, speexdsp, ao,
flac, libkate, vorbis-tools, opus-tools opusfile, icecast, libshout)[source]:
Use HTTPS URLs.
(icecast)[home-page]: Use HTTPS URL.
2018-10-23 00:18:17 -04:00
a640492f6d
gnu: Opus: Update to 1.3.
...
* gnu/packages/xiph.scm (opus): Update to 1.3.
2018-10-23 00:18:17 -04:00
d0ff383ed8
gnu: opus-tools: Update to 0.2.
...
* gnu/packages/xiph.scm (opus-tools): Update to 0.2.
[native-inputs]: Add pkg-config.
[inputs]: Add libopusenc and opusfile. Remove libogg and opus.
2018-10-23 00:18:17 -04:00
844b3272da
gnu: opusfile: Propagate dependencies required in pkg-config.
...
* gnu/packages/xiph.scm (opusfile)[inputs]: Move libogg and openssl to
propagated-inputs.
2018-10-23 00:18:17 -04:00
ce08d54c35
gnu: Add libopusenc.
...
* gnu/packages/xiph.scm (libopusenc): New variable.
2018-10-23 00:18:13 -04:00
d6a9c4ecfb
gnu: unbound: Update to 1.8.1.
...
* gnu/packages/dns.scm (unbound): Update to 1.8.1.
2018-10-23 04:18:50 +02:00
661da25133
gnu: Remove duplicate import from (gnu packages messaging).
...
* gnu/packages/messaging.scm (define-module): Remove duplicate module
import. Order the remainder alphabetically.
2018-10-23 04:18:40 +02:00
ee5c83533d
gnu: cppcheck: Update to 1.85.
...
* gnu/packages/check.scm (cppcheck): Update to 1.85.
2018-10-23 03:14:31 +02:00
3891c38346
gnu: bs1770gain: Update to 0.5.1.
...
* gnu/packages/audio.scm (bs1770gain): Update to 0.5.1.
2018-10-23 03:14:30 +02:00
2820e31590
gnu: zstd: Update to 1.3.7.
...
* gnu/packages/compression.scm (zstd): Update to 1.3.7.
2018-10-23 03:14:30 +02:00
63abd1e2a3
gnu: python-pymongo: Update to 3.7.2.
...
* gnu/packages/python.scm (python-pymongo): Update to 3.7.2.
2018-10-22 23:01:19 +02:00
47d7c10387
gnu: python-sure: Update to 1.4.11.
...
* gnu/packages/python.scm (python-sure): Update to 1.4.11.
2018-10-22 23:01:19 +02:00
9b9aaa57e3
gnu: python-markdown: Update to 3.0.1.
...
* gnu/packages/python.scm (python-markdown): Update to 3.0.1.
[arguments]: Remove.
2018-10-22 23:01:19 +02:00
1b50df7d5b
gnu: python-markdown: Update home page.
...
* gnu/packages/python.scm (python-markdown)[home-page]: Change to current.
2018-10-22 23:01:19 +02:00
cb61baf0e7
gnu: python-m2crypto: Update to 0.30.1.
...
* gnu/packages/python-crypto.scm (python-m2crypto): Update to 0.30.1.
2018-10-22 23:01:19 +02:00
e810de3e68
gnu: python-m2crypto: python-typing is only needed for python2.
...
* gnu/packages/python-crypto.scm (python-m2crypto)[propagated-inputs]: Remove.
[properties]: New field.
(python2-m2crypto)[propagated-inputs]: Add PYTHON2-TYPING.
2018-10-22 23:01:19 +02:00
90fb136ff7
gnu: xorg-server: Update to 1.20.2.
...
* gnu/packages/xorg.scm (xorg-server): Update to 1.20.2.
2018-10-22 23:01:19 +02:00
4350cacdf7
gnu: xf86-input-libinput: Update to 0.28.1.
...
* gnu/packages/xorg.scm (xf86-input-libinput): Update to 0.28.1.
2018-10-22 23:01:18 +02:00
3743e117a6
gnu: libmd: Update to 1.0.1.
...
* gnu/packages/crypto.scm (libmd): Update to 1.0.1.
2018-10-22 23:01:18 +02:00
f38eedd518
gnu: samba: Update to 4.8.6.
...
* gnu/packages/samba.scm (samba): Update to 4.8.6.
2018-10-22 23:01:18 +02:00
3ad0a35890
gnu: Add GN.
...
* gnu/packages/build-tools.scm (gn): New public variable.
2018-10-22 23:01:18 +02:00
f232c875d2
gnu: python-lazy-object-proxy: Update to 1.3.1.
...
* gnu/packages/python.scm (python-lazy-object-proxy): Update to 1.3.1.
2018-10-22 23:01:18 +02:00
b45688313b
gnu: python-mistune: Update to 0.8.4.
...
* gnu/packages/python.scm (python-mistune): Update to 0.8.4.
2018-10-22 23:01:18 +02:00
9861bcd182
gnu: liblxqt: Update to 0.13.0.
...
* gnu/packages/lxqt.scm (liblxqt): Update to 0.13.0.
[source]: Remove patches.
[home-page]: Use HTTPS.
* gnu/packages/patches/liblxqt-include.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-22 22:09:51 +08:00
50401c2a68
gnu: libqtxdg: Update to 3.2.0.
...
* gnu/packages/lxqt.scm (libqtxdg): Update to 3.2.0.
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-10-22 22:09:51 +08:00
51f4e36cb9
gnu: Add emacs-scribble-mode.
...
* gnu/packages/emacs.scm (emacs-scribble-mode): New variable.
2018-10-22 09:59:42 -04:00
3a352a4405
gnu: snap: Update to 4.2.2.2.
...
* gnu/packages/education.scm (snap): Update to 4.2.2.2. Update source URL.
2018-10-22 15:56:38 +02:00
09aa3d063a
gnu: Add r-ruvseq.
...
* gnu/packages/bioconductor.scm (r-ruvseq): New variable.
2018-10-22 13:00:24 +02:00
318ec0a896
gnu: livemedia-utils: Update to 2018.10.17 [fixes CVE-2018-4013].
...
* gnu/packages/video.scm (livemedia-utils): Update to 2018.10.17.
2018-10-22 03:37:53 -04:00
69c69c2d8e
gnu: libmpdclient: Update to 2.16.
...
* gnu/packages/mpd.scm (libmpdclient): Update to 2.16.
2018-10-21 23:55:28 -04:00
dc3dfa131f
gnu: knot: Update to 2.7.3.
...
* gnu/packages/dns.scm (knot): Update to 2.7.3.
2018-10-22 00:40:05 +02:00
df71447e99
gnu: OpenSSH: Update to 7.9p1.
...
* gnu/packages/ssh.scm (openssh): Update to 7.9p1.
2018-10-21 18:33:58 -04:00
ff598353c0
gnu: light: Update to 1.2.
...
* gnu/packages/linux.scm (light): Update to 1.2.
[source]: Switch to url-fetch.
[arguments]: Remove.
[native-inputs]: Remove help2man. Add autoconf and automake.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-21 23:54:46 +02:00
16d212510a
gnu: Add python-ilinkedlist.
...
* gnu/packages/python.scm (python-ilinkedlist): New variable.
2018-10-21 23:54:46 +02:00
aff38cb199
install: Make /var/guix/…/guix-profile a relative symlink.
...
* gnu/build/install.scm (populate-single-profile-directory): Make
/var/guix/profiles/per-user/root/guix-profile a relative symlink.
2018-10-21 23:54:46 +02:00
f8ee22fc8b
gnu: flexbar: Update to 3.4.0.
...
* gnu/packages/bioinformatics.scm (flexbar): Update to 3.4.0.
[source]: Fetch from git.
[arguments]: Adjust check and install phases.
[home-page]: Update to new home at Github.
[license]: Change to bsd-3.
2018-10-21 23:06:47 +02:00
4d93a9a36c
gnu: seqan: Update to 2.4.0.
...
* gnu/packages/bioinformatics.scm (seqan): Update to 2.4.0.
[native-inputs]: Replace bzip2 with xz.
(seqan-1): New variable.
(tophat)[inputs]: Use seqan-1.
2018-10-21 23:06:47 +02:00
4b8f4536ce
gnu: khmer: Update to 2.1.2.
...
* gnu/packages/bioinformatics.scm (khmer): Update to 2.1.2.
[source]: Fetch from git; remove bundled libraries in snippet.
[arguments]: Remove "set-paths" phase; remove "post-install-check" phase;
remove "reset-gzip-timestamps" phase.
[native-inputs]: Remove seqan and python-nose; add python-cython,
python-pytest, and python-pytest-runner.
[inputs]: Remove gcc-4.9.
2018-10-21 23:06:47 +02:00
50e33c3a8c
gnu: python-screed: Update to 1.0.
...
* gnu/packages/bioinformatics.scm (python-screed): Update to 1.0.
[arguments]: Run tests after installation.
[native-inputs]: Add python-pytest, python-pytest-cov, and
python-pytest-runner; remove python-nose.
2018-10-21 23:06:47 +02:00
0db75f7a79
gnu: fasttree: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (fasttree)[arguments]: Use INVOKE; simplify
install phase.
2018-10-21 23:06:46 +02:00
38622ccd14
gnu: express-beta-diversity: Update to 1.0.8.
...
* gnu/packages/bioinformatics.scm (express-beta-diversity): Update to 1.0.8.
[source]: Fetch from git.
[arguments]: Use INVOKE; remove "exit-source" build phase; simplify.
2018-10-21 23:06:46 +02:00
c96ca68f31
gnu: edirect: Update to 10.2.20181018.
...
* gnu/packages/bioinformatics.scm (edirect): Update to 10.2.20181018.
[arguments]: Add simple check phase; simplify other phases.
[inputs]: Add perl-xml-simple.
2018-10-21 23:06:46 +02:00
949fa34b84
gnu: eigensoft: Update to 7.2.1.
...
* gnu/packages/bioinformatics.scm (eigensoft): Update to 7.2.1.
[arguments]: Remove Makefile modification.
2018-10-21 23:06:46 +02:00
5748fe5fcc
gnu: discrover: Fetch from git.
...
* gnu/packages/bioinformatics.scm (discrover)[source]: Fetch from git.
2018-10-21 23:06:46 +02:00
4348a059e5
gnu: Add texlive-latex-examplep.
...
* gnu/packages/tex.scm (texlive-latex-examplep): New variable.
2018-10-21 23:06:46 +02:00
f50f343e0d
gnu: Add texlive-latex-verbatimbox.
...
* gnu/packages/tex.scm (texlive-latex-verbatimbox): New variable.
2018-10-21 23:06:46 +02:00
1d0669f4b4
gnu: Add texlive-latex-readarray.
...
* gnu/packages/tex.scm (texlive-latex-readarray): New variable.
2018-10-21 23:06:46 +02:00
893fbf1285
gnu: Add texlive-generic-listofitems.
...
* gnu/packages/tex.scm (texlive-generic-listofitems): New variable.
2018-10-21 23:06:46 +02:00
49b2e86adf
gnu: Add texlive-latex-doi.
...
* gnu/packages/tex.scm (texlive-latex-doi): New variable.
2018-10-21 23:06:46 +02:00
1c06399358
gnu: diamond: Fetch from git.
...
* gnu/packages/bioinformatics.scm (diamond)[source]: Fetch from git.
2018-10-21 23:06:46 +02:00
7a1e62ca67
gnu: delly: Update to 0.7.9.
...
* gnu/packages/bioinformatics.scm (delly): Update to 0.7.9.
[source]: Fetch from git.
[arguments]: Add phase install-templates; use default install phase.
[native-inputs]: Remove python-2.
[home-page]: Use new home page.
* gnu/packages/patches/delly-use-system-libraries.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
2018-10-21 23:06:46 +02:00
4d494a4fa3
gnu: deeptools: Update to 3.1.3.
...
* gnu/packages/bioinformatics.scm (deeptools): Update to 3.1.3.
2018-10-21 23:06:46 +02:00
e6b65bd219
gnu: eolie: Update to 0.9.45.
...
* gnu/packages/gnome.scm (eolie): Update to 0.9.45.
2018-10-21 23:06:46 +02:00
42643fc24d
gnu: python-dendropy: Fetch from git.
...
* gnu/packages/bioinformatics.scm (python-dendropy)[source]: Fetch from git.
2018-10-21 23:06:46 +02:00
6b31040ae6
gnu: python-py2bit: Update to 0.3.0.
...
* gnu/packages/bioinformatics.scm (python-py2bit): Update to 0.3.0.
2018-10-21 23:06:45 +02:00
6b7260bad1
gnu: cutadapt: Update to 1.18.
...
* gnu/packages/bioinformatics.scm (cutadapt): Update to 1.18.
[inputs]: Add python-dnaio.
2018-10-21 23:06:45 +02:00
a5b0038cbd
gnu: Add python-dnaio.
...
* gnu/packages/bioinformatics.scm (python-dnaio): New variable.
2018-10-21 23:06:45 +02:00
7321920cd3
gnu: crossmap: Update to 0.2.9.
...
* gnu/packages/bioinformatics.scm (crossmap): Update to 0.2.9.
* gnu/packages/patches/crossmap-allow-system-pysam.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
2018-10-21 23:06:45 +02:00
8640f9ec91
gnu: python-twobitreader: Update to 3.1.6.
...
* gnu/packages/bioinformatics.scm (python-twobitreader): Update to 3.1.6.
[source]: Fetch from git.
2018-10-21 23:06:45 +02:00
f5cec0068a
gnu: Add python-bx-python.
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* gnu/packages/bioinformatics.scm (python-bx-python): New variable.
(python2-bx-python): Define in terms of python-bx-python.
2018-10-21 23:06:45 +02:00
2ba2d62c69
gnu: python2-bx-python: Update to 0.8.2.
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* gnu/packages/bioinformatics.scm (python2-bx-python): Update to 0.8.2.
[source]: Remove obsolete snippet.
[inputs]: Move python2-numpy from here...
[propagated-inputs]: ...to here; add python2-six.
[native-inputs]: Add python2-lzo and python2-cython.
[home-page]: Update to new home at Github.
2018-10-21 23:06:45 +02:00
1d18ee6dfd
gnu: bwa-pssm: Fetch from git.
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* gnu/packages/bioinformatics.scm (bwa-pssm)[source]: Fetch from git.
2018-10-21 23:06:45 +02:00
9a6808e0c0
gnu: tophat: Update to 2.1.1.
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* gnu/packages/bioinformatics.scm (tophat): Update to 2.1.1.
* gnu/packages/patches/tophat-build-with-later-seqan.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
2018-10-21 23:06:45 +02:00
f7618bf18e
gnu: linux-libre: Update to 4.18.16.
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* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.16.
(%linux-libre-hash): Update hash.
2018-10-21 14:59:30 -04:00
668834cae0
gnu: linux-libre@4.14: Update to 4.14.78.
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* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.78.
(%linux-libre-4.14-hash): Update hash.
2018-10-21 14:58:03 -04:00
c4a7a51292
gnu: linux-libre@4.9: Update to 4.9.135.
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* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.135.
2018-10-21 14:57:24 -04:00
9ab6c680ba
gnu: linux-libre@4.4: Update to 4.4.162.
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* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.162.
2018-10-21 14:56:44 -04:00
673364cd3a
gnu: Add emacs-slime-repl-ansi-color.
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* gnu/packages/emacs.scm (emacs-slime-repl-ansi-color): New variable.
2018-10-21 19:49:10 +02:00
3a69b59332
gnu: rng-tools: Update to 6.6.
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* gnu/packages/linux.scm (rng-tools): Update to 6.6.
2018-10-21 17:57:01 +02:00
9b6dc31b6d
gnu: fluidsynth: Update to 2.0.1.
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* gnu/packages/audio.scm (fluidsynth): Update to 2.0.1.
(fluidsynth-1): New public variable.
* gnu/packages/games.scm (gzdoom)[inputs]: Change FLUIDSYNTH to FLUIDSYNTH-1.
* gnu/packages/music.scm (lmms)[inputs]: Likewise.
2018-10-21 17:57:01 +02:00
b6b3e5120a
gnu: libgxps: Update to 0.3.0.
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* gnu/packages/gnome.scm (libgxps): Update to 0.3.0.
[source](patches): Remove.
[build-system]: Switch to MESON-BUILD-SYSTEM.
[inputs]: Change LIBJPEG to LIBJPEG-TURBO.
* gnu/packages/patches/libgxps-CVE-2017-11590.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2018-10-21 17:57:01 +02:00
c8d62d936e
gnu: libgxps: Propagate required inputs.
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* gnu/packages/gnome.scm (libgxps)[inputs]: Move CAIRO, GLIB and LIBARCHIVE ...
[propagated-inputs]: ... here. New field.
2018-10-21 17:57:01 +02:00
920de4286a
gnu: re2: Update to 2018-10-01.
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* gnu/packages/regex.scm (re2): Update to 2018-10-01.
2018-10-21 17:57:01 +02:00
ab5e4be647
gnu: libgphoto2: Update to 2.5.19.
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* gnu/packages/photo.scm (libgphoto2): Update to 2.5.19.
2018-10-21 17:57:01 +02:00
8941b4ab3d
gnu: appstream-glib: Update to 0.7.14.
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* gnu/packages/glib.scm (appstream-glib): Update to 0.7.14.
2018-10-21 17:57:00 +02:00
8eadc55202
gnu: openal: Update to 1.19.1.
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* gnu/packages/audio.scm (openal): Update to 1.19.1.
2018-10-21 17:57:00 +02:00
2c17bd7b29
gnu: kodi: Disable version checker.
...
Fixes bug#32997.
* gnu/packages/kodi.scm (kodi)[arguments]: Add substitution to remove
the version checking configuration option.
2018-10-21 16:39:26 +03:00
617c478506
gnu: python2-dendropy: Disable failing test.
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* gnu/packages/bioinformatics.scm (python2-dendropy)[arguments]: Disable
failing test.
2018-10-21 22:31:56 +10:00
21c837405a
gnu: bowtie: Update to 2.3.4.3.
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* gnu/packages/bioinformatics.scm (bowtie): Update to 2.3.4.3.
[source]: Fetch from git.
[inputs]: Replace python-2 with python-wrapper; move perl, perl-clone,
perl-test-deep, and perl-test-simple from here...
[native-inputs]: ...to here.
[arguments]: Simplify check phase.
2018-10-20 23:37:34 +02:00
f45093429c
gnu: blast+: Use INVOKE and return #T unconditionally.
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* gnu/packages/bioinformatics.scm (blast+)[arguments]: Use INVOKE and
return #T unconditionally.
2018-10-20 23:37:34 +02:00
f8b697a385
gnu: bedops: Update to 2.4.35.
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* gnu/packages/bioinformatics.scm (bedops): Update to 2.4.35.
[source]: Fetch from git.
2018-10-20 23:37:34 +02:00
337d72fb44
gnu: bedops: Use INVOKE.
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* gnu/packages/bioinformatics.scm (bedops)[arguments]: Use INVOKE.
2018-10-20 23:37:34 +02:00
c793f4d8fb
gnu: bamm: Fetch from git and use INVOKE.
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* gnu/packages/bioinformatics.scm (bamm)[source]: Fetch from git.
[arguments]: Use INVOKE and return #T unconditionally.
2018-10-20 23:37:34 +02:00
95758e2faf
gnu: aragorn: Use invoke and simplify.
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* gnu/packages/bioinformatics.scm (aragorn)[arguments]: Use INVOKE in build
phase; simplify install phase.
2018-10-20 23:37:33 +02:00
8b4102b903
gnu: clipper: Update to 1.2.1.
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* gnu/packages/bioinformatics.scm (clipper): Update to 1.2.1.
[source]: Fetch from git.
[arguments]: Add fix-typo phase.
2018-10-20 23:37:33 +02:00
895cf8278a
gnu: python-pybedtools: Update to 0.7.10.
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* gnu/packages/bioinformatics.scm (python2-pybedtools): Update to 0.7.10.
[arguments]: Disable broken tests.
[propagated-inputs]: Replace bedtools with bedtools-2.26; add
python-matplotlib, python-pysam, and python-pyyaml.
[native-inputs]: Remove python-pyyaml; add kentutils, python-numpy,
python-pandas, and python-six.
(python-pybedtools): New variable.
2018-10-20 23:37:33 +02:00
129363b762
gnu: Add bedtools-2.26.
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* gnu/packages/bioinformatics.scm (bedtools-2.26): New variable.
2018-10-20 23:37:28 +02:00
bfa47f14b1
gnu: cataclysm-dda: Update snapshot.
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* gnu/packages/games.scm (cataclysm-dda): Update snapshot to 0b2c194e5.
2018-10-20 14:38:45 -04:00
82cbe4e046
gnu: maxima: Update to 5.42.0.
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* gnu/packages/maths.scm (maxima): Update to 5.42.0.
2018-10-20 14:38:45 -04:00
227da3a4c5
gnu: python-glances: Update to 3.0.2.
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* gnu/packages/python.scm (python-glances): Update to 3.0.2.
2018-10-20 18:24:23 +03:00
67fd64a490
gnu: emacs-hy-mode: Update to 1.0.3.
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* gnu/packages/emacs.scm (emacs-hy-mode): Update to 1.0.3.
2018-10-20 17:48:58 +03:00
e661dca879
gnu: emacs-erc-hl-nicks: Update to 1.3.3.
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* gnu/packages/emacs.scm (emacs-erc-hl-nicks): Update to 1.3.3.
2018-10-20 17:48:49 +03:00
91c5e6a69d
gnu: emacs-yasnippet: Update to 0.13.0.
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* gnu/packages/emacs.scm (emacs-yasnippet): Update to 0.13.0.
2018-10-20 17:48:36 +03:00
292d637b9e
gnu: emacs-nginx-mode: Update to 1.1.9.
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* gnu/packages/emacs.scm (emacs-nginx-mode): Update to 1.1.9.
2018-10-20 17:48:28 +03:00
2f1dacc281
gnu: emacs-rainbow-mode: Update to 1.0.1.
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* gnu/packages/emacs.scm (emacs-rainbow-mode): Update to 1.0.1.
2018-10-20 17:48:07 +03:00
45dcdf5349
gnu: emacs-smart-mode-line: Update to 2.12.0.
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* gnu/packages/emacs.scm (emacs-smart-mode-line): Update to 2.12.0.
2018-10-20 17:47:46 +03:00
9137596179
gnu: emacs-fill-column-indicator: Update to 1.89.
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* gnu/packages/emacs.scm (emacs-fill-column-indicator): Update to 1.89.
2018-10-20 17:47:13 +03:00
83246854f3
gnu: emacs-ggtags: Update to 0.8.13.
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* gnu/packages/emacs.scm (emacs-ggtags): Update to 0.8.13.
2018-10-20 17:46:43 +03:00
42f9ebdc77
gnu: emacs-which-key: Update to 3.3.0.
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* gnu/packages/emacs.scm (emacs-which-key): Update to 3.3.0.
2018-10-20 17:37:32 +03:00
0d3f170864
gnu: Add soundconverter.
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* gnu/packages/gnome.scm (soundconverter): New variable.
* gnu/packages/patches/soundconverter-remove-gconf-dependency.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
2018-10-20 12:24:50 +01:00
b5a927b3ba
gnu: Add enchive.
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* gnu/packages/crypto.scm (enchive): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-19 23:39:41 +02:00
64791eb7e1
services: ntp: Document 'ntp-service-type' and 'ntp-configuration'.
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* gnu/services/networking.scm (<ntp-configuration>)[servers]: Add
default value.
(ntp-service-type)[default-value]: New field.
(ntp-service): Mark as deprecated.
* gnu/services/desktop.scm (%desktop-services): Use (service
ntp-service-type) instead of calling 'ntp-service'.
* doc/guix.texi (Networking Services): Document 'ntp-service-type' and
'ntp-configuration'.
2018-10-19 23:39:41 +02:00
bc83b2e22f
gnu: Add i3blocks.
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* gnu/packages/wm.scm (i3blocks): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-19 23:39:37 +02:00
cdb84eb0e6
gnu: qsynth: Update to 0.5.3.
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* gnu/packages/audio.scm (qsynth): Update to 0.5.3.
2018-10-19 21:59:28 +02:00
0ee6692a63
gnu: sbcl-slime-swank: Remove reference to unbound variable.
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Fixes a regression introduced in commit
c4d4ae1e16
2018-10-19 18:34:07 +02:00
b1e6b93805
gnu: guile-wiredtiger: Update to 0.7.0.
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* gnu/packages/databases.scm (guile-wiredtiger): Update to 0.7.0.
[inputs]: Replace wiredtiger with wiredtiger-3
[propagated-inputs]: Remove guile-lib, add guile-bytestructures
[description]: Update it.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-19 18:28:57 +02:00
4680fef705
gnu: Add wiredtiger 3.1.0
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* gnu/packages/databases.scm (wiredtiger-3): New variable that inherits from
wiredtiger
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-10-19 18:28:57 +02:00
3bd45f5c80
gnu: emacs-slime: License is a mix of GPL2+ and public domain.
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* gnu/packages/emacs.scm (emacs-slime)[license]: Update to (gpl2+ public-domain)
2018-10-19 18:00:14 +02:00
e2e5004f6e
gnu: Add lparallel.
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* gnu/packages/lisp.scm (cl-lparallel, ecl-lparallel, sbcl-lparallel): New variables.
2018-10-19 17:56:38 +02:00
24fd7586a4
gnu: Add sbcl-cl-webkit.
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* gnu/packages/lisp.scm (sbcl-cl-webkit): New variable.
2018-10-19 17:56:38 +02:00
c80dfee9f1
gnu: Add sbcl-cl-cffi-gtk.
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* gnu/packages/lisp.scm (sbcl-cl-cffi-gtk): New variable.
2018-10-19 17:56:38 +02:00
7b5b8c4405
gnu: Add sbcl-cl-cffi-gtk-gdk.
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* gnu/packages/lisp.scm (sbcl-cl-cffi-gtk-gdk): New variable.
2018-10-19 17:56:37 +02:00
a3bdddc359
gnu: Add sbcl-cl-cffi-gtk-gdk-pixbuf.
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* gnu/packages/lisp.scm (sbcl-cl-cffi-gtk-gdk-pixbuf): New variable.
2018-10-19 17:56:37 +02:00
9ecc457b52
gnu: Add sbcl-cl-cffi-gtk-pango.
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* gnu/packages/lisp.scm (sbcl-cl-cffi-gtk-pango): New variable.
2018-10-19 17:56:37 +02:00
7176fe7c32
gnu: Add sbcl-cl-cffi-gtk-cairo.
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* gnu/packages/lisp.scm (sbcl-cl-cffi-gtk-cairo): New variable.
2018-10-19 17:56:37 +02:00
Pierre Neidhardt