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Author SHA1 Message Date
Efraim Flashner
774f8bbeb1
gnu: linkchecker: Use 'git-file-name' for the source. 
* gnu/packages/web.scm (linkchecker)[source]: Add missing 'file-name'
field.
 2018-11-18 11:57:44 +02:00
Efraim Flashner
74854d11ce
gnu: python-pytest-localserver: Update to 0.5.0. 
* gnu/packages/check.scm (python-pytest-localserver): Update to 0.5.0.
 2018-11-18 11:42:35 +02:00
Efraim Flashner
45a2346f32
gnu: python-pytest-localserver: Fix test suite. 
* gnu/packages/check.scm (python-pytest-localserver): Replace custom
'check phase.
 2018-11-18 11:42:23 +02:00
Pierre Neidhardt
d22ba64276
gnu: ccl: Include x86-headers and remove missing "contrib" folder. 
* gnu/packages/lisp.scm (ccl): Include x86-headers and remove missing "contrib" folder.
 2018-11-18 10:39:47 +01:00
Efraim Flashner
e005ddc223
gnu: libgtextutils: Re-instate custom bootstrap phase. 
The source lacks a standard bootstrap script so the bootstrap phase is
skipped otherwise.

* gnu/packages/textutils.smc (libgtextutils)[arguments]: Replace
'bootstrap phase with upstream's bootstrap phase.
 2018-11-18 10:18:47 +02:00
Marius Bakke
f8cba3ff4f
gnu: mesa: Stay on RTTI-less LLVM. 
* gnu/packages/llvm.scm (llvm-without-rtti): New public variable.
* gnu/packages/gl.scm (mesa)[inputs]: Use that instead of LLVM.
 2018-11-17 22:54:03 +01:00
Ludovic Courtès
bc9aa60bd5
gnu: nss: Make tests deterministic. 
Tests would fail once certificates had expired, along these lines:

  chains.sh: Verifying certificate(s)  PayPalEE.cert with flags -d AllDB -pp      -o OID.2.16.840.1.114412.1.1
  vfychain -d AllDB -pp -vv      -o OID.2.16.840.1.114412.1.1  /tmp/guix-build-nss-3.39.drv-0/nss-3.39/nss/tests/libpkix/certs/PayPalEE.cert
  Chain is bad!
  PROBLEM WITH THE CERT CHAIN:
  CERT 0. PayPalEE :
    ERROR -8181: Peer's Certificate has expired.
  Returned value is 1, expected result is pass

Using 'faketime' allows us to get deterministic results.

* gnu/packages/gnuzilla.scm (nss)[arguments]: In 'check' phase, run
'all.sh' under 'faketime'.
[native-inputs]: Add LIBFAKETIME.
 2018-11-17 19:02:18 +01:00
Ludovic Courtès
85b28320d4
gnu: Add libfaketime. 
* gnu/packages/check.scm (libfaketime): New variable.
 2018-11-17 17:40:55 +01:00
Eric Bavier
0a41123f01
gnu: Add ClamAV. 
* gnu/packages/antivirus.scm: New file.
* gnu/packages/patches/clamav-system-tomsfastmath.patch,
gnu/packages/patches/clamav-config-llvm-libs.patch: New files.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add new module.
(dist_patch_DATA): Add patches.

Co-authored-by: Christopher Baines <mail@cbaines.net>
 2018-11-17 00:20:44 -06:00
Eric Bavier
7ed018e8a2
gnu: Add TomsFastMath. 
* gnu/packages/multiprecision.scm (tomsfastmath): New variable.
* gnu/packages/patches/tomsfastmath-constness.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
 2018-11-17 00:20:44 -06:00
Eric Bavier
fc9dbf4131
llvm: Build with RTTI by default. 
Increases size of llvm@6 by 2.5MiB (2.5%), but saves building specialized
llvm's with rtti enabled for packages that require RTTI when linking with the
llvm libraries.

* gnu/packages/llvm.scm (llvm-3.8-with-rtti): Remove variable.
(llvm)[arguments]: Add '-DLLVM_REQUIRES_RTTI=1' to #:configure-flags.
* gnu/packages/audio.scm (faust-2)[native-inputs]:
'llvm-3.8-with-rtti' -> 'llvm-3.8'.
 2018-11-17 00:19:53 -06:00
Vagrant Cascadian
0c7707d53e
gnu: u-boot: Update to 2018.11. 
* gnu/packages/bootloaders.scm (u-boot): Update to 2018.11.
(u-boot)[native-inputs]: Add lz4.
 2018-11-17 00:16:29 +01:00
Kyle Meyer
243bdcc12e
gnu: Add git-when-merged. 
* gnu/packages/version-control.scm (git-when-merged): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:11:40 +01:00
Thorsten Wilms
7a44e8752e
gnu: Add caps-plugins-lv2. 
* gnu/packages/audio.scm (caps-plugins-lv2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:09:00 +01:00
David Thompson
a7b7d48cc7
gnu: tiled: Update to 1.2.1. 
* gnu/packages/game-development.scm (tiled): Update to 1.2.1.
 2018-11-16 10:34:29 -05:00
Mathieu Othacehe
2aee2a96b6
guile: newt: Update revision to 2. 
* gnu/packages/guile.scm (guile-newt): Update revision to 2.
 2018-11-16 17:42:07 +09:00
Andreas Enge
eea7cd7519
gnu: Add cmh. 
* gnu/packages/algebra.scm (cmh): New variable.
 2018-11-16 09:06:31 +01:00
Andreas Enge
44ff80fc0e
gnu: gp2c: Update to 0.0.11pl1. 
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl1.
 2018-11-16 08:48:47 +01:00
Maxim Cournoyer
03592a6f88
gnu: emacs-realgud: Patch configure.ac to repair the build. 
This fixes https://bugs.gnu.org/33196, a build problem caused by a defective
Elisp snippet in a check in configure.ac.

* gnu/packages/patches/emacs-realgud-fix-configure-ac.patch: Add patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/emacs.scm (emacs-realgud)[source]: Use it.
 2018-11-15 22:42:35 -05:00
pimi
30f0d21b40
gnu: Add nanopolish. 
* gnu/packages/bioinformatics.scm (nanopolish): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-11-15 22:23:57 +01:00
Roel Janssen
2d86eaff5b
gnu: sambamba: Update to 0.6.8. 
* gnu/packages/bioinformatics.scm (sambamba): Update to 0.6.8.
 2018-11-15 13:09:01 +01:00
Mark H Weaver
2e0f69057a
gnu: bioinformatics: Return #t from all phases and snippets. 
* gnu/packages/bioinformatics.scm (bamtools, ribotaper, bioawk)
(codingquarry, fraggenescan, minced, pplacer, star, subread, sailfish)
(salmon): Return #t from all phases and snippets, use 'invoke' where
appropriate, and remove vestigal plumbing.
 2018-11-14 23:44:18 -05:00
Mark H Weaver
96272e2822
gnu: databases: Return #t from all phases. 
* gnu/packages/databases.scm (4store, go-gopkg.in-mgo.v2, mongodb)
(sparql-query, tdb, sqlcipher, python-sqlparse, mongo-tools): Return #t from
all phases, use invoke where appropriate, and remove vestigial plumbing.
 2018-11-14 23:44:16 -05:00
Mark H Weaver
9f6f726c7f
gnu: compression: Return #t from all phases. 
* gnu/packages/compression.scm (perl-compress-raw-zlib, java-snappy)
(java-iq80-snappy, pzstd, java-tukaani-xz): Return #t from all phases.
 2018-11-14 23:44:14 -05:00
Mark H Weaver
29594404a1
gnu: check: Return #t from all phases. 
* gnu/packages/check.scm (cmdtest, python-pytest-cov, python-fixtures)
(python-pytest-localserver, python-pytest-flakes)
(python2-coverage-test-runner, python-pylint, python-behave-web-api):
Return #t from all phases, and use invoke where appropriate.
 2018-11-14 23:44:12 -05:00
Mark H Weaver
ee527187a6
gnu: audio: Return #t from all phases. 
* gnu/packages/audio.scm (clalsadrv, jack-2, libsbsms, zita-convolver)
(zita-resampler, zita-alsa-pcmi, gsm, cava): Return #t from all phases.
(ladspa): Use 'modify-phases'.  Return #t from all phases.
 2018-11-14 23:44:10 -05:00
Mark H Weaver
c6bf07d14a
gnu: xorg: Return #t from all phases. 
* gnu/packages/xorg.scm (xcompmgr)
* gnu/packages/xdisorg.scm (xdotool, scrot, unclutter, xscreensaver)
(tint2, nxbelld, xautolock): Return #t from all phases.
 2018-11-14 23:44:08 -05:00
Mark H Weaver
aa6f87a2b9
gnu: xml: Return #t from all phases. 
* gnu/packages/xml.scm (python-libxml2, perl-xml-sax, xlsx2csv, libxls)
(java-kxml2): Return #t from all phases.
 2018-11-14 23:44:06 -05:00
Mark H Weaver
9dcfd6aac9
gnu: video: Return #t from all phases. 
* gnu/packages/video.scm (youtube-dl-gui, avidemux, xvid, twitchy, aegisub):
Return #t from all phases, use invoke where appropriate, and remove vestigial
plumbing.
 2018-11-14 23:44:04 -05:00
Mark H Weaver
4851af9ebe
gnu: perl: Return #t from all phases. 
* gnu/packages/gd.scm (perl-gd-securityimage)
* gnu/packages/libevent.scm (perl-ev)
* gnu/packages/markup.scm (perl-text-markdown-discount)
* gnu/packages/perl-check.scm (perl-test2-bundle-extended)
* gnu/packages/perl.scm (perl-digest-md5, perl-encode-hanextra)
(perl-ipc-run, perl-pathtools)
* gnu/packages/photo.scm (perl-image-exiftool): Return #t from all phases.
 2018-11-14 23:44:02 -05:00
Mark H Weaver
366c1cbbc6
gnu: networking: Return #t from all phases. 
* gnu/packages/networking.scm (miredo, tcp-wrappers, librdkafka, ifstatus)
(iodine, httpstat, perl-socket6, perl-netaddr-ip, libproxy, openvswitch)
(libnet, asio): Return #t from all phases.
 2018-11-14 23:43:59 -05:00
Mark H Weaver
9922278b25
gnu: linux: Return #t from all phases. 
* gnu/packages/linux.scm (iproute, ntfs-3g, cpupower, radeontop, tlp):
Return #t from all phases.
 2018-11-14 23:43:57 -05:00
Mark H Weaver
fccacffbf4
gnu: image: Return #t from all phases. 
* gnu/packages/image.scm (libpng-apng, pngcrush, leptonica, zimg)
(perceptualdiff): Return #t from all phases.
 2018-11-14 23:43:54 -05:00
Mark H Weaver
cb8ba848d2
gnu: admin: Return #t from all phases. 
* gnu/packages/admin.scm (daemon-tools, rottlog, wpa-supplicant-minimal)
(wakelan, cpulimit, nmap, sunxi-tools): Return #t from all phases.
 2018-11-14 23:43:48 -05:00
Mark H Weaver
7413c31693
gnu: linux-libre: Update to 4.19.2. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.19.2.
(%linux-libre-hash): Update hash.
 2018-11-14 19:16:24 -05:00
Mark H Weaver
24ba798731
gnu: linux-libre@4.14: Update to 4.14.81. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.81.
(%linux-libre-4.14-hash): Update hash.
 2018-11-14 19:14:39 -05:00
Mark H Weaver
6a1cff70bc
gnu: linux-libre@4.9: Update to 4.9.137. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.137.
 2018-11-14 19:13:46 -05:00
Ludovic Courtès
21f7d88e7a
gnu: texlive-bin: Fix substitution regexp. 
This is a followup to commit be200ef316.

* gnu/packages/tex.scm (texlive-bin)[arguments]: In
'disable-failing-test' phase, escape "|" characters.
 2018-11-14 23:49:19 +01:00
Paul Garlick
ae0f1dd1a4
gnu: Add fenics. 
* gnu/packages/simulation.scm (fenics): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
0ace6c0b84
gnu: Add fenics-dolfin. 
* gnu/packages/simulation.scm (fenics-dolfin): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
6b7f1f8afa
gnu: Add python-fenics-ffc. 
* gnu/packages/simulation.scm (python-fenics-ffc): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
0fc499834f
gnu: Add python-fenics-fiat. 
* gnu/packages/simulation.scm (python-fenics-fiat): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
3941cf5afa
gnu: Add python-fenics-ufl. 
* gnu/packages/simulation.scm (python-fenics-ufl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
f7a4757a4c
gnu: Add python-fenics-dijitso. 
* gnu/packages/simulation.scm (python-fenics-dijitso): New varaible.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
6b5687d053
gnu: Add python-slepc4py. 
* gnu/packages/maths.scm (python-slepc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
90ff287401
gnu: Add python-petsc4py. 
* gnu/packages/maths.scm (python-petsc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
54fcd547b3
gnu: Add python-mpi4py. 
* gnu/packages/mpi.scm (python-mpi4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Ludovic Courtès
7a54b2281d
gnu: guix-daemon: Install 'guix-authenticate'. 
Fixes <https://bugs.gnu.org/33368>.
Reported by Konrad Hinsen <konrad.hinsen@fastmail.net>.

* gnu/packages/package-management.scm (guix-daemon)[arguments]: In
'install' phase, build "install-nodist_libexecSCRIPTS" target to install
'guix-authenticate'.
 2018-11-14 21:34:08 +01:00
Marius Bakke
79ee97a144
Merge branch 'master' into core-updates 2018-11-14 21:20:46 +01:00
Marius Bakke
7d9d521fbc
gnu: aide: Provide libpcre.a and libz.a. 
* gnu/packages/admin.scm (aide)[inputs]: Add PCRE:STATIC and ZLIB:STATIC.
 2018-11-14 21:07:01 +01:00
Marius Bakke
e921993c25
gnu: xf86-video-r128: Update to 6.12.0. 
* gnu/packages/xorg.scm (xf86-video-r128): Update to 6.12.0.
 2018-11-14 21:05:30 +01:00
Marius Bakke
24dd6ec38a
gnu: mtools: Update to 4.0.20. 
* gnu/packages/mtools.scm (mtools): Update to 4.0.20.
[source](uri): Change to 'bz2' compressed tarball.
 2018-11-14 21:05:30 +01:00
Marius Bakke
7939387da8
gnu: nano: Update to 3.2. 
* gnu/packages/nano.scm (nano): Update to 3.2.
 2018-11-14 21:05:30 +01:00
Marius Bakke
d63f588486
gnu: sudo: Update to 1.8.26. 
* gnu/packages/admin.scm (sudo): Update to 1.8.26.
 2018-11-14 21:05:30 +01:00
Marius Bakke
bac2974e86
gnu: feh: Update to 3.0. 
* gnu/packages/image-viewers.scm (feh): Update to 3.0.
 2018-11-14 21:05:30 +01:00
Ricardo Wurmus
ee66a13563
gnu: Add jamm. 
* gnu/packages/bioinformatics.scm (jamm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
e4f4a04a51
gnu: Add r-ouch. 
* gnu/packages/cran.scm (r-ouch): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
10483a64ee
gnu: Add r-activity. 
* gnu/packages/cran.scm (r-activity): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
3cef715a46
gnu: Add r-circular. 
* gnu/packages/cran.scm (r-circular): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
08bf097a0b
gnu: Add r-overlap. 
* gnu/packages/cran.scm (r-overlap): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
acbf23da44
gnu: Add r-acdm. 
* gnu/packages/cran.scm (r-acdm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
ffdeda3ce0
gnu: Add r-acd. 
* gnu/packages/cran.scm (r-acd): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
488dc4e1e2
gnu: Add r-abn. 
* gnu/packages/cran.scm (r-abn): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
0c92f3734e
gnu: Add r-rjags. 
* gnu/packages/cran.scm (r-rjags): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
0bca8643a2
gnu: Add jags. 
* gnu/packages/statistics.scm (jags): New variable.
 2018-11-14 15:13:17 +01:00
Ricardo Wurmus
51b262f310
gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4. 
* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene):
Update to 3.4.4.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus
d34959b8d4
gnu: r-org-mm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus
314511b862
gnu: r-org-dm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
76bd16bcf6
gnu: r-org-ce-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
fc7683fa30
gnu: r-org-hs-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
cb9e6ed702
gnu: r-genomationdata: Update to 1.14.0. 
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
13e70f6304
gnu: r-go-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
13a574652b
gnu: r-genomeinfodbdata: Update to 1.2.0. 
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
 2018-11-13 23:34:39 +01:00
Taegil Bae
3f995aaf21
gnu: spice-vdagent: Fix typo in desktop file. 
Fixes <https://bugs.gnu.org/33346>.

* gnu/packages/spice.scm (spice-vdagent)[arguments]: Fix typo in
'patch-spice-vdagent.desktop' phase.
 2018-11-13 15:26:30 -05:00
Alex Vong
c991806a7d
gnu: ImageMagick: Update to 6.9.10-14. 
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-14.
 2018-11-14 03:09:37 +08:00
Leo Famulari
d540137509
gnu: libssh: Fetch source over HTTPS. 
* gnu/packages/ssh.scm (libssh)[source]: Use HTTPS URL.
 2018-11-13 11:43:35 -05:00
Leo Famulari
978d59737a
gnu: direnv: Build with Go 1.9. 
* gnu/packages/shellutils.scm (direnv)[native-inputs]: Remove go.
[inputs]: Add go-1.9.
 2018-11-13 11:28:23 -05:00
Leo Famulari
021bf6af18
gnu: Poppler: Fix CVE-2018-19149. 
* gnu/packages/patches/poppler-CVE-2018-19149.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/pdf.scm (poppler)[replacement]: New field.
(poppler/fixed): New variable.
(poppler-qt4, poppler-qt5): Use package/inherit.
 2018-11-13 11:28:23 -05:00
Leo Famulari
8263b9f71f
gnu: certbot, python-acme: Update to 0.28.0. 
* gnu/packages/tls.scm (certbot, python-acme): Update to 0.28.0.
 2018-11-13 10:10:42 -05:00
Ludovic Courtès
3483f82413
gnu: guix: Update to f5a2724. 
* gnu/packages/package-management.scm (guix): Update to f5a2724.
 2018-11-13 15:44:25 +01:00
Ludovic Courtès
d3f75179e5
services: nscd: Add 'invalidate' and 'statistics' actions. 
* gnu/services/base.scm (nscd-action-procedure, nscd-actions): New
procedures.
(nscd-shepherd-service): Add 'modules' and 'actions' fields.
* gnu/tests/base.scm (run-basic-test)["nscd invalidate action"]
["nscd invalidate action, wrong table"]: New tests.
* doc/guix.texi (Services): Mention 'herd doc nscd action'.
(Base Services): Document the actions.
 2018-11-13 14:59:45 +01:00
Ludovic Courtès
190877748e
services: mcron: Fix typo in comment. 
* gnu/services/mcron.scm (shepherd-schedule-action): Fix typo in comment.
 2018-11-13 14:59:45 +01:00
Oleg Pykhalov
155956449a
gnu: restic: Fix build phase. 
* gnu/packages/backup.scm (restic)[arguments]: Set "HOME" environment variable
in build phase.
 2018-11-13 15:03:15 +03:00
Ricardo Wurmus
6018683683
gnu: c-toxcore: Fetch sources from git. 
* gnu/packages/messaging.scm (c-toxcore)[source]: Fetch from git.
 2018-11-13 10:51:41 +01:00
Rutger Helling
7fed5481fe
gnu: wine-staging: Update to 3.20. 
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.20.
* gnu/packages/wine.scm (wine-staging): Update to 3.20.
 2018-11-13 10:24:42 +01:00
Julien Lepiller
0dd60c1c9b
gnu: php: Update to 7.2.12. 
* gnu/packages/php.scm (php): Update to 7.2.12.
 2018-11-12 23:57:42 +01:00
Arun Isaac
e740a90228
gnu: youtube-dl: Update to 2018.11.07. 
* gnu/packages/video.scm (youtube-dl): Update to 2018.11.07.
 2018-11-12 22:09:12 +05:30
Efraim Flashner
53bcee9ea7
gnu: vifm: Update to 0.10. 
* gnu/packages/vim.scm (vifm): Update to 0.10.
 2018-11-12 12:37:00 +02:00
Pierre Neidhardt
5c4758415d
gnu: go-github-com-aarzilli-golua: Fix for go-1.11. 
* gnu/packages/golang.scm (go-github-com-aarzilli-golua)[arguments]: Fix for go-1.11.
[native-inputs]: Remove lua.
[propagated-inputs]: Add lua.
 2018-11-12 10:31:23 +01:00
Pierre Neidhardt
46a4ae2212
gnu: go-github-com-wtolson-go-taglib: Fix tests and build for go-1.11. 
* gnu/packages/golang.scm (go-github-com-wtolson-go-taglib)[arguments]: Fix tests for go-1.11.
[native-inputs]: Remove pkg-config and taglib.
[propagated-inputs]: Add pkg-config and taglib.
 2018-11-12 10:30:10 +01:00
Pierre Neidhardt
66fa8f0f77
gnu: go-gopkg.in-asn1-ber.v1: Fix tests for go-1.11. 
* gnu/packages/syncthing.scm (go-gopkg.in-asn1-ber.v1): Fix tests for go-1.11.
 2018-11-12 10:29:43 +01:00
Pierre Neidhardt
d4780c8238
gnu: go-github-com-audriusbutkevicius-cli: Fix tests for go-1.11. 
* gnu/packages/syncthing.scm (go-github-com-audriusbutkevicius-cli): Fix tests for go-1.11.
 2018-11-12 10:29:37 +01:00
Pierre Neidhardt
46a37b5966
gnu: go-github-com-prometheus-common-expfmt: Fix tests for go-1.11. 
* gnu/packages/syncthing.scm (go-github-com-prometheus-common-expfmt): Fix tests for go-1.11.
 2018-11-12 10:29:31 +01:00
Pierre Neidhardt
9a65a05201
gnu: go: Update default to 1.11. 
* gnu/packages/golang.scm (go): Update default to 1.11.
 2018-11-12 10:28:46 +01:00
Ricardo Wurmus
5f9b38ba34
gnu: r-s4vectors: Update to 0.20.1. 
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.20.1.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
06910a8689
gnu: r-rcmdcheck: Update to 1.3.2. 
* gnu/packages/cran.scm (r-rcmdcheck): Update to 1.3.2.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
2a4c5877a9
gnu: r-ggpubr: Update to 0.1.9. 
* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.9.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
441cf11de1
gnu: r-dplyr: Update to 0.7.8. 
* gnu/packages/statistics.scm (r-dplyr): Update to 0.7.8.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
41d2c26e67
gnu: r-rcpparmadillo: Update to 0.9.200.4.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.200.4.0.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
23dd886a95
gnu: r-rtsne: Update to 0.15. 
* gnu/packages/statistics.scm (r-rtsne): Update to 0.15.
 2018-11-11 23:13:48 +01:00
Ricardo Wurmus
7865c8c460
gnu: r-lme4: Update to 1.1-19. 
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-19.
 2018-11-11 23:13:48 +01:00
Marius Bakke
a509b18087
gnu: webkitgtk@2.22: Adjust to documentation output. 
This is a follow-up to commit 0ead0b4d2c.

* gnu/packages/webkit.scm (webkitgtk)[arguments]: Remove hard coded file list.
(webkitgtk-2.22)[arguments]: Inherit phases using SUBSTITUTE-KEYWORD-ARGUMENTS.
 2018-11-11 22:47:06 +01:00
Ricardo Wurmus
aaf0e47f6d
gnu: libtoxcore: Update to 0.0.0-2.bf69b54. 
* gnu/packages/messaging.scm (libtoxcore): Update to 0.0.0-2.bf69b54.
[native-inputs]: Add check.
 2018-11-11 20:51:51 +01:00
Ricardo Wurmus
e874f34d3f
gnu: mumi: Update to 0.0.0-2.bfd96ce7. 
* gnu/packages/mail.scm (mumi): Update to 0.0.0-2.bfd96ce7.
 2018-11-11 20:51:51 +01:00
Leo Famulari
ec35067631
gnu: PostgreSQL: Update to 10.6 [fixes CVE-2018-16850]. 
* gnu/packages/databases.scm (postgresql): Update to 10.6.
 2018-11-11 14:10:03 -05:00
Marius Bakke
8c5749f1b5
gnu: python-cffi: Fix test failure on i686. 
* gnu/packages/patches/python-cffi-x87-stack-clean.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/libffi.scm (python-cffi)[source](patches): Add it.
 2018-11-11 17:18:05 +01:00
Pierre Neidhardt
0ead0b4d2c
gnu: webkitgtk: Include documentation. 
* gnu/packages/webkit.scm (webkitgtk): Include documentation.
 2018-11-11 16:44:46 +01:00
Pierre Neidhardt
50ee7e93fc
gnu: gtk-doc: Use local docbook-xsl. 
* gnu/packages/gtk.scm (gtk-doc): Use local docbook-xsl.
 2018-11-11 16:41:45 +01:00
Ricardo Wurmus
89c7894805
gnu: faust-2: Update to 2.5.23. 
* gnu/packages/audio.scm (faust-2): Update to 2.5.23.
[native-inputs]: Replace llvm-with-rtti with llvm-3.8-with-rtti.
* gnu/packages/llvm.scm (llvm-with-rtti): Rename this variable...
(llvm-3.8-with-rtti): ...to this variable; inherit from llvm-3.8.
 2018-11-11 16:19:59 +01:00
Clément Lassieur
37a350ecce
gnu: gajim: Move python-docutils from inputs to native-inputs. 
* gnu/packages/messaging.scm (gajim): Move python-docutils from inputs to
native-inputs.
 2018-11-11 16:00:08 +01:00
Clément Lassieur
60c5b44489
gnu: gajim: Get the second 'wrap-program' phase to return #t. 
* gnu/packages/messaging.scm (gajim)[arguments]: Get the second 'wrap-program'
phase to return #t.
 2018-11-11 16:00:00 +01:00
Clément Lassieur
992a496503
gnu: gajim: Update to 1.1.0. 
* gnu/packages/messaging.scm (gajim): Update to 1.1.0.
[arguments]: Set #:test-target to "test_nogui".  Remove the
'remove-test-resolver' and 'start-xserver' phases.
[inputs]: Remove python-pyasn1.  Add python-cssutils, python-keyring and
python-precis-i18n.
 2018-11-11 15:59:07 +01:00
Clément Lassieur
a311f42e1b
gnu: python-nbxmpp: Update to 0.6.8. 
* gnu/packages/messaging.scm (python-nbxmpp): Update to 0.6.8.
 2018-11-11 15:59:03 +01:00
Clément Lassieur
4ad3786b7b
gnu: Add python-precis-i18n. 
* gnu/packages/messaging.scm (python-precis-i18n): New variable.
 2018-11-11 15:58:50 +01:00
Ricardo Wurmus
902068b436
gnu: tiled: Fetch sources from git. 
* gnu/packages/game-development.scm (tiled)[source]: Fetch from git.
 2018-11-11 13:18:27 +01:00
Ricardo Wurmus
9066424778
gnu: privoxy: Remove custom bootstrap phase. 
* gnu/packages/tor.scm (privoxy)[arguments]: Remove autoconf phase.
 2018-11-11 13:10:56 +01:00
Ricardo Wurmus
2b61cd37b4
gnu: cifs-utils: Remove autoreconf phase. 
* gnu/packages/samba.scm (cifs-utils)[arguments]: Remove autoreconf phase.
 2018-11-11 13:08:56 +01:00
Ricardo Wurmus
cd1f661e82
gnu: libiax2: Fetch sources from git. 
* gnu/packages/telephony.scm (libiax2)[source]: Fetch from git.
 2018-11-11 13:06:31 +01:00
Ricardo Wurmus
5a103bb84e
gnu: libiax2: Remove custom bootstrap phase. 
* gnu/packages/telephony.scm (libiax2)[arguments]: Remove.
 2018-11-11 13:04:08 +01:00
Ricardo Wurmus
6f3dd09f8d
gnu: libharu: Remove custom bootstrap phase. 
* gnu/packages/pdf.scm (libharu)[arguments]: Remove autogen phase.
 2018-11-11 13:00:53 +01:00
Ricardo Wurmus
2b2ab39cfc
gnu: libharu: Fetch sources from git. 
* gnu/packages/pdf.scm (libharu)[source]: Fetch from git.
 2018-11-11 13:00:35 +01:00
Ricardo Wurmus
bc74e9e4cd
gnu: scsh: Remove custom bootstrap phase. 
* gnu/packages/shells.scm (scsh)[arguments]: Remove autoreconf phase.
 2018-11-11 12:56:22 +01:00
Ricardo Wurmus
e5ff963a6d
gnu: xdelta: Remove custom bootstrap phase. 
* gnu/packages/compression.scm (xdelta)[arguments]: Remove autoconf phase.
 2018-11-11 12:52:46 +01:00
Ricardo Wurmus
0633c77b1b
gnu: xdelta: Fetch sources from git. 
* gnu/packages/compression.scm (xdelta)[source]: Fetch from git.
 2018-11-11 12:52:30 +01:00
Ricardo Wurmus
112fcafbae
gnu: libtar: Remove custom bootstrap phase. 
* gnu/packages/compression.scm (libtar)[arguments]: Remove autoconf phase.
 2018-11-11 12:47:51 +01:00
Ricardo Wurmus
3478945948
gnu: minizip: Remove custom bootstrap phase. 
* gnu/packages/compression.scm (minizip)[arguments]: Remove autoreconf phase.
 2018-11-11 12:45:52 +01:00
Ricardo Wurmus
4078beab93
gnu: inotify-tools: Remove custom bootstrap phase. 
* gnu/packages/linux.scm (inotify-tools)[arguments]: Remove.
 2018-11-11 12:36:35 +01:00
Ricardo Wurmus
88f9fea723
gnu: inotify-tools: Fetch sources from git. 
* gnu/packages/linux.scm (inotify-tools)[source]: Fetch from git.
 2018-11-11 12:36:15 +01:00
Ricardo Wurmus
2286107f60
gnu: par2cmdline: Remove custom bootstrap phase. 
* gnu/packages/backup.scm (par2cmdline)[arguments]: Remove.
 2018-11-11 12:31:35 +01:00
Ricardo Wurmus
5cdbdc2b13
gnu: par2cmdline: Fetch sources from git. 
* gnu/packages/backup.scm (par2cmdline)[source]: Fetch from git.
 2018-11-11 12:31:18 +01:00
Ricardo Wurmus
2fef54fd64
gnu: hpcguix-web: Do not re-bootstrap. 
* gnu/packages/web.scm (hpcguix-web)[arguments]: Do not run autoreconf after
the bootstrap phase; remove "autoconf" phase to "set-variables"; end phase
with #T.
 2018-11-11 12:27:01 +01:00
Ricardo Wurmus
cbb6a15056
gnu: schismtracker: Remove custom bootstrap phase. 
* gnu/packages/music.scm (schismtracker)[arguments]: Remove autoconf phase.
 2018-11-11 12:19:23 +01:00
Ricardo Wurmus
8865973848
gnu: lilypond: Use INVOKE. 
* gnu/packages/music.scm (lilypond)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-11 12:15:03 +01:00
Ricardo Wurmus
3b9e9415fa
gnu: schismtracker: Fetch sources from git. 
* gnu/packages/music.scm (schismtracker)[source]: Fetch from git.
 2018-11-11 12:07:21 +01:00
Ricardo Wurmus
234a1825b2
gnu: clyrics: Fetch sources from git. 
* gnu/packages/music.scm (clyrics)[source]: Fetch from git.
[native-inputs]: Remove.
[arguments]: Adjust builder.
 2018-11-11 12:01:25 +01:00
Ricardo Wurmus
3a0592ae31
gnu: lmms: Fetch sources from git. 
* gnu/packages/music.scm (lmms)[source]: Fetch from git.
 2018-11-11 12:00:55 +01:00
Ricardo Wurmus
caa39e56f7
gnu: milkytracker: Fetch sources from git. 
* gnu/packages/music.scm (milkytracker)[source]: Fetch from git.
 2018-11-11 11:44:24 +01:00
Ricardo Wurmus
08bc7f2665
gnu: dotconf: Fetch sources from git. 
* gnu/packages/textutils.scm (dotconf)[source]: Fetch from git.
 2018-11-11 11:37:01 +01:00
Ricardo Wurmus
7a52d0e075
gnu: dotconf: Remove custom bootstrap phase. 
* gnu/packages/textutils.scm (dotconf)[arguments]: Remove autoreconf phase.
 2018-11-11 11:36:39 +01:00
Ricardo Wurmus
d68a15806b
gnu: libgtextutils: Remove custom bootstrap phase. 
* gnu/packages/textutils.scm (libgtextutils)[arguments]: Remove.
 2018-11-11 11:34:55 +01:00
Ricardo Wurmus
fab455840e
gnu: libtoxcore: Remove custom bootstrap phase. 
* gnu/packages/messaging.scm (libtoxcore)[arguments]: Remove autoconf phase.
 2018-11-11 11:33:39 +01:00
Ricardo Wurmus
867d9de690
gnu: openocd: Use INVOKE. 
* gnu/packages/embedded.scm (openocd)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-11 11:32:12 +01:00
Ricardo Wurmus
4cd6ab1b1f
gnu: libjaylink: Remove custom bootstrap phase. 
* gnu/packages/embedded.scm (libjaylink)[arguments]: Remove.
 2018-11-11 11:23:39 +01:00
Ricardo Wurmus
a69cc70dea
gnu: lrdf: Replace bootstrap phase. 
* gnu/packages/rdf.scm (lrdf)[arguments]: Remove autoreconf phase; replace
bootstrap phase instead.
 2018-11-11 11:22:22 +01:00
Ricardo Wurmus
d212ed2f00
gnu: lrdf: Fetch sources from git. 
* gnu/packages/rdf.scm (lrdf)[source]: Fetch from git.
 2018-11-11 11:21:55 +01:00
Efraim Flashner
2bdca67351
gnu: python-yapf: Update to 0.24.0. 
* gnu/packages/python.scm (python-yapf): Update to 0.24.0.
 2018-11-11 11:54:32 +02:00
Efraim Flashner
22d04ceda0
gnu: python-rq: Update to 0.12.0. 
* gnu/packages/databases.scm (python-rq): Update to 0.12.0.
 2018-11-11 11:54:28 +02:00
Ricardo Wurmus
2cabd29323
gnu: guildhall: Remove custom bootstrap phase. 
* gnu/packages/guile.scm (guildhall)[arguments]: Remove autogen phase.
 2018-11-11 10:38:00 +01:00
Ricardo Wurmus
34da5c394b
gnu: guile-dsv: Remove custom bootstrap phase. 
* gnu/packages/guile.scm (guile-dsv)[arguments]: Remove autoreconf phase.
 2018-11-11 10:22:45 +01:00
Ricardo Wurmus
5ad728e04c
gnu: opendht: Remove custom bootstrap phase. 
* gnu/packages/crypto.scm (opendht)[arguments]: Remove autoconf phase.
 2018-11-11 10:21:02 +01:00
Ricardo Wurmus
974056c05e
gnu: opendht: Fetch sources from git. 
* gnu/packages/crypto.scm (opendht)[source]: Fetch from git.
 2018-11-11 10:20:36 +01:00
Ricardo Wurmus
a49b5322c5
gnu: lxsession: Remove custom bootstrap phase. 
* gnu/packages/lxde.scm (lxsession)[arguments]: Remove autoreconf phase and
end rm-stamp phase with #T.
 2018-11-11 10:16:43 +01:00
Efraim Flashner
261e421459
gnu: python-pyclipper: Enable tests. 
* gnu/packages/python.scm (python-pyclipper)[arguments]: Enable tests.
[native-inputs]: Add python-pytest, python-pytest-runner,
python-unittest2.
 2018-11-11 11:13:56 +02:00
Efraim Flashner
8189ce6f05
gnu: python-pyclipper: Update to 1.1.0post1. 
* gnu/packages/python.scm (python-pyclipper): Update to 1.1.0post1.
[source]: Add snippet to remove cythonized source files.
[arguments]: Add custom phase to generate cythonized files.
[native-inputs]: Add python-cython.
[description]: Update clipper library version.
 2018-11-11 11:13:56 +02:00
Efraim Flashner
95176544d5
gnu: python-paste: Update to 3.0.4. 
* gnu/packages/python-web.scm (python-paste): Update to 3.0.4.
[source]: Remove patch, add snippet to remove one test.
[native-inputs]: Add python-pytest, python-pytest-runner.
* gnu/packages/patches/python-paste-remove-website-test.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-11-11 11:13:56 +02:00
Efraim Flashner
5ac2b2717f
gnu: python-networkx2: Remove variable. 
* gnu/packages/python.scm (python-networkx2): Remove variable.
* gnu/packages/patches/python-networkx2-reproducible-build.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-11-11 11:13:55 +02:00
Efraim Flashner
c92d056a8b
gnu: python-alembic: Update to 1.0.2. 
* gnu/packages/databases.scm (python-alembic, python2-alembic): Update
to 1.0.2.
 2018-11-11 11:13:53 +02:00
Ricardo Wurmus
f1f1cebdd3
gnu: mdbtools: Fetch sources from git. 
* gnu/packages/databases.scm (mdbtools)[source]: Fetch from git.
 2018-11-11 10:09:54 +01:00
Ricardo Wurmus
f626b71923
gnu: mdbtools: Remove custom bootstrap phase. 
* gnu/packages/databases.scm (mdbtools)[arguments]: Remove.
 2018-11-11 10:05:56 +01:00
Ricardo Wurmus
1410e178bb
gnu: pianobar: Fetch sources from git. 
* gnu/packages/music.scm (pianobar)[source]: Fetch from git.
 2018-11-11 10:03:06 +01:00
Ricardo Wurmus
487e3f5a80
gnu: ibus-rime: Fetch sources from git. 
* gnu/packages/ibus.scm (ibus-rime)[source]: Fetch from git.
 2018-11-11 10:03:06 +01:00
Ricardo Wurmus
863742856c
gnu: librime: Fetch sources from git. 
* gnu/packages/ibus.scm (librime)[source]: Fetch from git.
 2018-11-11 10:03:06 +01:00
Efraim Flashner
28b24e9975
gnu: bitshuffle: Don't use '-march=native'. 
* gnu/packages/compression.scm (bitshuffle)[arguments]: Add custom phase
to substitute out the '-march=native' compilation flag.
 2018-11-11 08:57:16 +02:00
Efraim Flashner
01029e2043
gnu: bitshuffle: Update to 0.3.5. 
* gnu/packages/compression.scm (bitshuffle): Update to 0.3.5.
[source]: Add snippet to remove cythonized source files.
 2018-11-11 08:57:16 +02:00
Efraim Flashner
5528b8e788
gnu: tvtime: Fix building with glibc@2.28. 
* gnu/packages/tvtime.scm (tvtime)[arguments]: Add custom phase to add
missing import.
 2018-11-11 08:57:13 +02:00
Efraim Flashner
cab70d4c2a
gnu: perl-autovivification: Update to 0.18. 
* gnu/packages/perl.scm (perl-autovivification): Update to 0.18.
 2018-11-11 08:21:59 +02:00
Mark H Weaver
717d29e25b
gnu: icecat: Add more fixes from mozilla-esr60. 
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes
from the upstream mozilla-esr60 source repository.
 2018-11-10 20:29:19 -05:00
Mark H Weaver
3b14494616
gnu: icecat: Update to 60.3.0-gnu1. 
* gnu/packages/gnuzilla.scm (icecat): Update to 60.3.0-gnu1.
[source]: Switch back to the normal source URI.  Remove patches that
are no longer applicable.
* gnu/packages/patches/icecat-CVE-2018-12383.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-11-10 20:28:32 -05:00
Mark H Weaver
e22842f5ca
gnu: linux-libre@4.14: Update to 4.14.80. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.80.
(%linux-libre-4.14-hash): Update hash.
 2018-11-10 20:23:57 -05:00
Mark H Weaver
62168a5558
gnu: linux-libre@4.9: Update to 4.9.136. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.136.
 2018-11-10 20:23:15 -05:00
Mark H Weaver
fc43d6d4d9
gnu: linux-libre@4.4: Update to 4.4.163. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.163.
 2018-11-10 20:22:30 -05:00
Ricardo Wurmus
4cbbb16045
gnu: nxbelld: Remove custom bootstrap phase. 
* gnu/packages/xdisorg.scm (nxbelld)[arguments]: Remove autoreconf phase.
 2018-11-10 23:42:54 +01:00
Ricardo Wurmus
f116e1fcae
gnu: wmclock: Remove custom bootstrap phase. 
* gnu/packages/gnustep.scm (wmclock)[arguments]: Remove.
 2018-11-10 23:42:54 +01:00
Ricardo Wurmus
e17f867c62
gnu: wmbattery: Remove custom bootstrap phase. 
* gnu/packages/gnustep.scm (wmbattery)[arguments]: Remove autoconf phase.
 2018-11-10 23:42:54 +01:00
Ricardo Wurmus
7db147ec45
gnu: rtmidi: Remove custom bootstrap phase. 
* gnu/packages/audio.scm (rtmidi)[arguments]: Remove autoconf phase.
 2018-11-10 23:42:54 +01:00
Ricardo Wurmus
cdb4048d72
gnu: portaudio: Remove custom bootstrap phase. 
* gnu/packages/audio.scm (portaudio)[arguments]: Remove autoreconf phase.
 2018-11-10 23:42:54 +01:00
Pierre Langlois
78e3d554d1
gnu: Add emacs-ivy-rich. 
* gnu/packages/emacs.scm (emacs-ivy-rich): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:47 +01:00
Meiyo Peng
d5b23d2b7d
gnu: Add ibus-rime. 
* gnu/packages/ibus.scm (ibus-rime): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:47 +01:00
Meiyo Peng
1329f095bb
gnu: Add rime-data. 
* gnu/packages/ibus.scm (rime-data): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:47 +01:00
Meiyo Peng
78209a165b
gnu: Add librime. 
* gnu/packages/ibus.scm (librime): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:47 +01:00
Meiyo Peng
2f968763c3
gnu: ibus: Indent code properly. 
* gnu/packages/ibus.scm (ibus, ibus-libpinyin): Indent code properly.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:47 +01:00
Meiyo Peng
1a0363cf07
gnu: Add opencc. 
* gnu/packages/textutils.scm (opencc): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:46 +01:00
Meiyo Peng
9d466489cd
gnu: Add marisa. 
* gnu/packages/datastructures.scm (marisa): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-10 23:33:46 +01:00
Ludovic Courtès
30288ae57e
gnu: mdadm: Update to 4.1. 
* gnu/packages/linux.scm (mdadm): Update to 4.1.
 2018-11-10 23:33:46 +01:00
Ricardo Wurmus
37ebc19cfb
gnu: msgpack: Remove custom bootstrap phase. 
* gnu/packages/serialization.scm (msgpack)[arguments]: Remove.
 2018-11-10 23:30:52 +01:00
Ricardo Wurmus
bed4eb373e
gnu: gxtuner: Fetch sources from git. 
* gnu/packages/music.scm (gxtuner)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
a7fde1a86d
gnu: cava: Fetch sources from git. 
* gnu/packages/audio.scm (cava)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
c2a2d364df
gnu: cli-visualizer: Fetch sources from git. 
* gnu/packages/audio.scm (cli-visualizer)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
b249ff5d37
gnu: dcadec: Fetch sources from git. 
* gnu/packages/audio.scm (dcadec)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
4289a306b7
gnu: cuetools: Fetch sources from git. 
* gnu/packages/audio.scm (cuetools)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
8e5995e397
gnu: xjackfreak: Fetch sources from git. 
* gnu/packages/audio.scm (xjackfreak)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
458baefb40
gnu: rsound: Fetch sources from git. 
* gnu/packages/audio.scm (rsound)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
eca7729301
gnu: rtmidi: Fetch sources from git. 
* gnu/packages/audio.scm (rtmidi)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
0b8db03504
gnu: infamous-plugins: Fetch sources from git. 
* gnu/packages/audio.scm (infamous-plugins)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
2ae2395422
gnu: swh-plugins-lv2: Fetch sources from git. 
* gnu/packages/audio.scm (swh-plugins-lv2)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
917dc89672
gnu: csound: Fetch sources from git. 
* gnu/packages/audio.scm (csound)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
b255365cd1
gnu: lvtk: Fetch sources from git. 
* gnu/packages/audio.scm (lvtk)[source]: Fetch from git.
 2018-11-10 23:29:26 +01:00
Ricardo Wurmus
78eff85770
gnu: ams-lv2: Fetch sources from git. 
* gnu/packages/music.scm (ams-lv2)[source]: Fetch from git.
 2018-11-10 23:29:25 +01:00
Ricardo Wurmus
57906fad59
gnu: portmidi-for-extempore: Fetch sources from git. 
* gnu/packages/music.scm (portmidi-for-extempore)[source]: Fetch from git.
 2018-11-10 23:29:25 +01:00
Ricardo Wurmus
ca364e7a3c
gnu: jalv-select: Fetch sources from git. 
* gnu/packages/music.scm (jalv-select)[source]: Fetch from git.
[arguments]: Add phase make-manpages-writable.
 2018-11-10 23:29:25 +01:00
Nicolas Goaziou
79b8341292
gnu: emacs-circe: Update to 2.10. 
* gnu/packages/emacs.scm (emacs-circe): Update to 2.10.
 2018-11-10 23:27:05 +01:00
Ricardo Wurmus
74c903edab
Add missing license import. 
* gnu/packages/mail.scm: Import agpl3+.
 2018-11-10 22:37:07 +01:00
Ricardo Wurmus
e3a4703174
gnu: Add mumi. 
* gnu/packages/mail.scm (mumi): New variable.
 2018-11-10 22:36:13 +01:00
Ricardo Wurmus
2d900b0464
gnu: Add guile-debbugs-next. 
* gnu/packages/guile.scm (guile-debbugs-next): New variable.
 2018-11-10 22:36:13 +01:00
Ricardo Wurmus
7453785624
gnu: Add guile-email. 
* gnu/packages/guile.scm (guile-email): New variable.
 2018-11-10 22:36:13 +01:00
Ricardo Wurmus
95906eee18
gnu: guile-ics: Remove custom bootstrap phase. 
* gnu/packages/guile.scm (guile-ics)[arguments]: Remove.
 2018-11-10 22:36:13 +01:00
Efraim Flashner
1a392ee7ae
gnu: nfs-utils: Fix building with glibc@2.28. 
* gnu/packages/nfs.scm (nfs-utils)[arguments]: Add custom phase to fix
building with glibc@2.28.
 2018-11-10 22:36:33 +02:00
Efraim Flashner
c1ab159085
gnu: perl-autovivification: Update to 0.18. 
* gnu/packages/perl.scm (perl-autovivification): Update to 0.18.
 2018-11-10 22:36:33 +02:00
Efraim Flashner
e8b9aaf0b1
mtd-utils: Update to 2.0.2. 
* gnu/packages/linux.scm (mtd-utils): Update to 2.0.2.
[arguments]: Remove 'test-target, 'make-flags. Re-enable 'configure
phase. Add 'configure-flag for the unit-tests.
[native-inputs]: Add cmocka, pkg-config.
 2018-11-10 20:54:34 +02:00
Efraim Flashner
1de2937283
gnu: idutils: Fix building with glibc@2.28. 
* gnu/packages/idutils.scm (idutils)[source]: Add snippet to patch
bundled gnulib for glibc@2.28.
 2018-11-10 20:18:37 +02:00
Efraim Flashner
211db9caf7
gnu: sharutils: Remove false comment. 
This is a follow-up to b50d58b344.

* gnu/packages/compression.scm (sharutils)[source]: This snippet is, in
fact, a snippet.
 2018-11-10 20:18:37 +02:00
Efraim Flashner
9829e0699b
gnu: lbzip2: Remove false comment. 
This is a follow-up to f268b744b8.

* gnu/packages/compression.scm (lbzip2)[source]: This snippet is, in
fact, a snippet.
 2018-11-10 20:18:34 +02:00
Clément Lassieur
a7553a7360
services: dovecot: Set correct default value for the "auth" service. 
* gnu/services/mail.scm (dovecot-configuration): Set 'service-count' to 0 for
the "auth" service.
 2018-11-10 19:12:21 +01:00
Clément Lassieur
be8dd4a5fe
services: dovecot: Allow to set 'process-limit'. 
* doc/guix.texi (Mail Services): Update accordingly.
* gnu/services/mail.scm (service-configuration)[process-limit]: New field.
(dovecot-configuration)[services]: Set 'process-limit' to its correct default
value.
 2018-11-10 19:12:18 +01:00
Clément Lassieur
8d9bb4b4d0
services: dovecot: Allow to set 'client-limit'. 
* doc/guix.texi (Mail Services): Update accordingly.
* gnu/services/mail.scm (service-configuration)[client-limit]: New field.
(dovecot-configuration)[services]: Set 'client-limit' to its correct default
value.
 2018-11-10 19:12:14 +01:00
Efraim Flashner
f268b744b8
gnu: lbzip2: Fix building with glibc@2.28. 
* gnu/packages/compression.scm (lbzip2)[source]: Add snippet to patch
bundled gnulib for glibc@2.28.
 2018-11-10 20:07:56 +02:00
Efraim Flashner
efe0a4a2a7
gnu: dvd+rw-tools: Use invoke. 
* gnu/packages/cdrom.scm (dvd+rw-tools): Use 'invoke'.
 2018-11-10 19:59:30 +02:00
Efraim Flashner
2529c8381f
gnu: dvd+rw-tools: Fix building with glibc@2.28. 
* gnu/packages/cdrom.scm (dvd+rw-tools)[arguments]: Add custom phase to
add missing import.
 2018-11-10 19:59:27 +02:00
Efraim Flashner
8754ea483d
gnu: f2fs-tools: Update to 1.11.0. 
* gnu/packages/linux.scm (f2fs-tools): Update to 1.11.0.
 2018-11-10 19:29:17 +02:00
Efraim Flashner
005ec8d09c
gnu: f2fs-tools: Update to 1.11.0. 
* gnu/packages/linux.scm (f2fs-tools): Update to 1.11.0.
 2018-11-10 19:29:05 +02:00
Ricardo Wurmus
03a415365a
gnu: r-ensembldb: Update to 2.6.1. 
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.1.
 2018-11-09 19:41:54 +01:00
Ricardo Wurmus
88514b9124
gnu: r-biostrings: Update to 2.50.1. 
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.1.
 2018-11-09 19:41:53 +01:00
Ricardo Wurmus
77bea84ba1
gnu: r-biocviews: Update to 1.50.5. 
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.5.
 2018-11-09 19:41:53 +01:00
Ricardo Wurmus
317f5a5a91
gnu: r-sn: Update to 1.5-3. 
* gnu/packages/statistics.scm (r-sn): Update to 1.5-3.
 2018-11-09 19:41:53 +01:00
Ricardo Wurmus
5174f06b0c
gnu: r-rgooglemaps: Update to 1.4.3. 
* gnu/packages/geo.scm (r-rgooglemaps): Update to 1.4.3.
 2018-11-09 19:41:53 +01:00
Ricardo Wurmus
492ec49890
gnu: r-tmb: Update to 1.7.15. 
* gnu/packages/cran.scm (r-tmb): Update to 1.7.15.
 2018-11-09 19:41:53 +01:00
Ricardo Wurmus
fccb24501a
gnu: r-jomo: Update to 2.6-5. 
* gnu/packages/cran.scm (r-jomo): Update to 2.6-5.
[propagated-inputs]: Add r-mass.
 2018-11-09 19:41:50 +01:00
Ricardo Wurmus
f87a18e660
gnu: r-rcpp: Update to 1.0.0. 
* gnu/packages/cran.scm (r-rcpp): Update to 1.0.0.
[native-inputs]: Add r-knitr.
 2018-11-09 19:01:42 +01:00
Ricardo Wurmus
06bc7b82f7
gnu: Add r-arm. 
* gnu/packages/cran.scm (r-arm): New variable.
 2018-11-09 18:04:37 +01:00
Ricardo Wurmus
cf383cf08f
gnu: Add r-feature. 
* gnu/packages/cran.scm (r-feature): New variable.
 2018-11-09 18:04:37 +01:00
Ricardo Wurmus
da256afb9e
gnu: Add r-ks. 
* gnu/packages/cran.scm (r-ks): New variable.
 2018-11-09 18:04:37 +01:00
Ricardo Wurmus
4106e6ad87
gnu: Add r-misc3d. 
* gnu/packages/cran.scm (r-misc3d): New variable.
 2018-11-09 18:04:36 +01:00
Ricardo Wurmus
213e72a18d
gnu: Add r-multicool. 
* gnu/packages/cran.scm (r-multicool): New variable.
 2018-11-09 18:04:36 +01:00
Ricardo Wurmus
f338e4807f
gnu: Add r-rgl. 
* gnu/packages/cran.scm (r-rgl): New variable.
 2018-11-09 18:04:36 +01:00
Ricardo Wurmus
a961ae469c
gnu: Add r-destiny. 
* gnu/packages/bioconductor.scm (r-destiny): New variable.
 2018-11-09 17:15:31 +01:00
Marius Bakke
64461ba20a
Merge branch 'master' into core-updates 2018-11-09 17:02:08 +01:00
Ricardo Wurmus
ff939ef4d5
gnu: Add r-h5. 
* gnu/packages/cran.scm (r-h5): New variable.
 2018-11-09 16:57:13 +01:00
Ricardo Wurmus
3a4c6288c8
gnu: Add r-aggregation. 
* gnu/packages/cran.scm (r-aggregation): New variable.
 2018-11-09 16:57:13 +01:00
Ricardo Wurmus
8a587c89af
gnu: Add r-savr. 
* gnu/packages/bioconductor.scm (r-savr): New variable.
 2018-11-09 16:45:21 +01:00
Ricardo Wurmus
cee9ab244f
gnu: r-with-tests: Update to 3.5.1. 
* gnu/packages/statistics.scm (r-with-tests): Update to 3.5.1.
 2018-11-09 14:07:26 +01:00
Ricardo Wurmus
2eaaadb4d6
gnu: r-with-tests: Use INVOKE. 
* gnu/packages/statistics.scm (r-with-tests)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-09 14:07:22 +01:00
Pierre Neidhardt
ddd925f608
gnu: Add emacs-gtk-look. 
* gnu/packages/emacs.scm (emacs-gtk-look): New variable.
 2018-11-09 11:55:08 +01:00
Pierre Neidhardt
2cce23bfb8
gnu: Add xmlrpc-c. 
* gnu/packages/xml.scm (xmlrpc-c): New variable.
 2018-11-09 11:55:08 +01:00
Mathieu Othacehe
97f33b05ec
gnu: guile-newt: Update to revision 1. 
* gnu/packages/guile.scm (guile-newt): Update to revision 1.
 2018-11-09 19:39:14 +09:00
Ricardo Wurmus
1b12b572a5
gnu: powertabeditor: Fetch sources from git. 
* gnu/packages/music.scm (powertabeditor)[source]: Fetch from git.
 2018-11-09 08:37:53 +01:00
Ricardo Wurmus
b1b82aed5d
gnu: powertabeditor: Use INVOKE. 
* gnu/packages/music.scm (powertabeditor)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-09 08:37:53 +01:00
Kei Kebreau
e4b62e229e
gnu: wxmaxima: Update to 18.10.1. 
* gnu/packages/maths.scm (wxmaxima): Update to 18.10.1.
[source]: Update URL and remove patch.
* gnu/packages/patches/wxmaxima-do-not-use-old-gnuplot-parameters.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
 2018-11-09 01:09:06 -05:00
Leo Famulari
41d2b7f50b
gnu: PostgreSQL 9: Update to 9.6.11 [fixes CVE-2018-16850]. 
* gnu/packages/databases.scm (postgresql-9.6): Update to 9.6.11.
 2018-11-08 13:42:56 -05:00
Pierre Neidhardt
2705780f3f
gnu: Add emacs-clang-format. 
* gnu/packages/emacs.scm (emacs-clang-format): New variable.
 2018-11-08 13:08:26 +01:00
Efraim Flashner
e3407254d5
gnu: kodi: Update to 18.0b5. 
* gnu/packages/kodi.scm (kodi): Update to 18.0b5.
[source]: Update snippet.
[inputs]: Add flatbuffers, fstrcmp.
(crossguid): Update to commit fef89a4174a7bf8cd99fa9154864ce9e8e3bf989.
(libdvdnav/kodi, libdvdread/kodi): Update to 6.0.0-Leia-Alpha-3.
(libdvdcss/kodi): Update to 1.4.2-Leia-Beta-5.
 2018-11-08 12:01:24 +02:00
Efraim Flashner
988b78ba28
gnu: Add fstrcmp. 
* gnu/packages/kodi.scm (fstrcmp): New variable.
 2018-11-08 12:01:20 +02:00
Stefan Stefanović
ec86863113
services: elogind: Fix spelling errors of left value fields in elogind config file. 
* gnu/services/desktop.scm (elogind-configuration-file)[ini-file]:
    Fix spelling of left value fields:
    InhibitDelayMaxSecs, HoldoffTimeoutSecs, IdleActionSeconds, RemoveIpc.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-08 10:24:35 +01:00
Luther Thompson
9870b9f7f8
gnu: python-ilinkedlist: Update to 0.3.1. 
* gnu/packages/python.scm (python-ilinkedlist): Update to 0.3.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-08 10:24:26 +01:00
Vagrant Cascadian
195e081b43
gnu: Add python-pyelftools. 
* gnu/packages/python.scm (python-pyelftools):
  New public variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-08 10:24:22 +01:00
Ricardo Wurmus
69cb939ee7
gnu: libmusicbrainz: Use INVOKE. 
* gnu/packages/music.scm (libmusicbrainz)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-08 10:17:15 +01:00
Ricardo Wurmus
9ab90ead36
gnu: pd: Remove custom autoconf phase. 
* gnu/packages/music.scm (pd)[arguments]: Remove custom autoconf phase.
 2018-11-08 10:14:08 +01:00
Ricardo Wurmus
4e82946888
gnu: cmus: Fetch sources from git. 
* gnu/packages/music.scm (cmus)[source]: Fetch from git.
 2018-11-08 10:10:06 +01:00
Ricardo Wurmus
ec618c2005
gnu: cmus: Use INVOKE. 
* gnu/packages/music.scm (cmus)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-08 10:09:32 +01:00
Ricardo Wurmus
9c30cba431
gnu: pcc: Use INVOKE. 
* gnu/packages/c.scm (pcc)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-08 10:08:09 +01:00
Ricardo Wurmus
a1e83a9856
gnu: pplacer-scripts: Use INVOKE. 
* gnu/packages/bioinformatics.scm (pplacer-scripts)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 10:06:35 +01:00
Ricardo Wurmus
ce49fdcce9
gnu: roary: Use INVOKE. 
* gnu/packages/bioinformatics.scm (roary)[arguments]: Use INVOKE and return #T
unconditionally.
 2018-11-08 09:58:05 +01:00
Ricardo Wurmus
a9542937c8
gnu: seek: Use INVOKE. 
* gnu/packages/bioinformatics.scm (seek)[arguments]: Use INVOKE and return #T
unconditionally; patch "gen_tools_am" shebang in "bootstrap" phase.
 2018-11-08 09:54:22 +01:00
Ricardo Wurmus
9f527c9199
gnu: sailfish: Use INVOKE. 
* gnu/packages/bioinformatics.scm (sailfish)[arguments]: Use INVOKE instead of
SYSTEM*.
 2018-11-08 09:52:46 +01:00
Ricardo Wurmus
86c6928ea3
gnu: vsearch: Update to 2.9.1. 
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.9.1.
* gnu/packages/patches/vsearch-unbundle-cityhash.patch: Update.
 2018-11-08 09:46:42 +01:00
Ricardo Wurmus
15c9609482
gnu: sra-tools: Update to 2.9.3. 
* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.3.
[arguments]: Remove build phase patch-away-glibc-conflict.
 2018-11-08 09:46:05 +01:00
Ricardo Wurmus
b17333414f
gnu: plink-ng: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (plink-ng)[source]: Fetch from git.
 2018-11-08 09:30:59 +01:00
Ricardo Wurmus
87408854ec
gnu: ncbi-vdb: Update to 2.9.3. 
* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.3.
 2018-11-08 09:30:16 +01:00
Ricardo Wurmus
8d3eaa9262
gnu: ngs-sdk: Update to 2.9.3. 
* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.3.
 2018-11-08 09:29:58 +01:00
Ricardo Wurmus
3da3cedf76
gnu: ngs-sdk: Use INVOKE. 
* gnu/packages/bioinformatics.scm (ngs-sdk)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 09:15:05 +01:00
Ricardo Wurmus
e78e54d029
gnu: emboss: Use INVOKE. 
* gnu/packages/bioinformatics.scm (emboss)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 09:14:09 +01:00
Ricardo Wurmus
8b685c4720
gnu: taxtastic: Use INVOKE. 
* gnu/packages/bioinformatics.scm (taxtastic)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 09:13:35 +01:00
Ricardo Wurmus
2e2d88539c
gnu: sra-tools: Use INVOKE. 
* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 09:12:43 +01:00
Ricardo Wurmus
179416467f
gnu: muscle: Use INVOKE. 
* gnu/packages/bioinformatics.scm (muscle)[arguments]: Use INVOKE and
return #T unconditionally.
 2018-11-08 09:11:38 +01:00
Ricardo Wurmus
0881d62f25
gnu: newick-utils: Remove custom autoconf phase. 
* gnu/packages/bioinformatics.scm (newick-utils)[arguments]: Remove.
 2018-11-08 09:10:58 +01:00
Ricardo Wurmus
e35dce0170
gnu: mash: Remove custom autoconf phase. 
* gnu/packages/bioinformatics.scm (mash)[arguments]: Remove autoconf phase.
 2018-11-08 09:10:20 +01:00
Ricardo Wurmus
31c41a8cfe
gnu: vsearch: Remove custom autogen phase. 
* gnu/packages/bioinformatics.scm (vsearch)[arguments]: Remove.
 2018-11-08 09:04:34 +01:00
Ricardo Wurmus
c527d36f02
gnu: java-picard-1.113: Use INVOKE. 
* gnu/packages/bioinformatics.scm (java-picard-1.113)[arguments]: Use INVOKE
and return #T unconditionally.
 2018-11-08 09:02:34 +01:00
Ricardo Wurmus
e438c96558
gnu: fraggenescan: Use INVOKE. 
* gnu/packages/bioinformatics.scm (fraggenescan)[arguments]: Use INVOKE in
build phases and return #T unconditionally.
 2018-11-08 08:58:46 +01:00
Ricardo Wurmus
c098c49b3e
gnu: sailfish: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (sailfish)[source]: Fetch from git.
 2018-11-08 08:53:54 +01:00
Ricardo Wurmus
4031e7f1ec
gnu: ngs-sdk: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (ngs-sdk)[source]: Fetch from git.
 2018-11-08 08:53:53 +01:00
Ricardo Wurmus
6a7d9ee39f
gnu: ncbi-vdb: Use INVOKE and end phases on #T. 
* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use INVOKE and
unconditionally end phases with #T.
 2018-11-08 08:53:53 +01:00
Ricardo Wurmus
3398dfb764
gnu: ncbi-vdb: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (ncbi-vdb)[source]: Fetch from git.
[arguments]: Add phase to make checkout writable.
 2018-11-08 08:53:53 +01:00
Ricardo Wurmus
e0f1aa2d2b
gnu: tadbit: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (tadbit)[source]: Fetch from git.
[version]: Use "2.0.0" instead of "2.0".
 2018-11-08 08:53:50 +01:00
Kei Kebreau
ed33049cdc
gnu: pspp: Update to 1.2.0. 
* gnu/packages/statistics.scm (pspp): Update to 1.2.0.
[inputs]: Add spread-sheet-widget.
[native-inputs]: Add autoconf, python-2, and texinfo.
 2018-11-07 17:46:25 -05:00
Kei Kebreau
e2f36385d3
gnu: Add spread-sheet-widget. 
* gnu/packages/gtk.scm (spread-sheet-widget): New public variable.
 2018-11-07 17:46:25 -05:00
Ricardo Wurmus
f3f34b132c
gnu: filevercmp: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (filevercmp)[source]: Fetch from git.
[arguments]: Add #T to the end of the install phase.
 2018-11-07 23:17:36 +01:00
Ricardo Wurmus
3b888065da
gnu: ritornello: Update to 2.0.1. 
* gnu/packages/bioinformatics.scm (ritornello): Update to 2.0.1.
[arguments]: Adjust file patching.
 2018-11-07 23:17:36 +01:00
Ricardo Wurmus
7145f4e519
gnu: ritornello: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (ritornello)[source]: Fetch from git.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
e0a8fc85dd
gnu: snap-aligner: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (snap-aligner)[source]: Fetch from git.
[arguments]: Use INVOKE.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
6236524409
gnu: sortmerna: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (sortmerna)[source]: Fetch from git.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
273df99d7d
gnu: vsearch: Fetch source from git. 
* gnu/packages/bioinformatics.scm (vsearch)[source]: Fetch from git.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
67caa4b773
gnu: preseq: Update to 2.0.3. 
* gnu/packages/bioinformatics.scm (preseq): Update to 2.0.3.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
37e285be43
gnu: preseq: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (preseq)[source]: Fetch from git.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
63f3255e13
gnu: seqtk: Update to 1.3. 
* gnu/packages/bioinformatics.scm (seqtk): Update to 1.3.
[source]: Remove outdated snippet.
[arguments]: Use INVOKE and return #T unconditionally.
 2018-11-07 23:17:35 +01:00
Ricardo Wurmus
019fcdf20a
gnu: seqtk: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (seqtk)[source]: Fetch from git.
 2018-11-07 23:17:34 +01:00
Ricardo Wurmus
b9d0c3564b
gnu: raxml: Update to 8.2.12. 
* gnu/packages/bioinformatics.scm (raxml): Update to 8.2.12.
 2018-11-07 23:17:34 +01:00
Ricardo Wurmus
d9ba126d17
gnu: python2-biom-format: Fix build. 
This is a follow-up to commit 239716fb0b.

* gnu/packages/bioinformatics.scm (python2-biom-format)[arguments]: Modify
phases of base package.
 2018-11-07 23:17:34 +01:00
Ricardo Wurmus
4715d4af17
gnu: raxml: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (raxml)[source]: Fetch from git.
 2018-11-07 23:17:34 +01:00
Ricardo Wurmus
5e242b02c3
gnu: pyicoteo: Fetch sources from git. 
* gnu/packages/bioinformatics.scm (pyicoteo)[source]: Fetch from git.
 2018-11-07 23:17:34 +01:00
Efraim Flashner
b44b1f08f6
gnu: hplip: Remove bundled non-free blobs. 
This fixes <https://bugs.gnu.org/32184>.

* gnu/packages/cups.scm (hplip)[source]: Add patch. Update snippet to
remove non-free code and binary blobs.
* gnu/packages/patches/hplip-remove-imageprocessor.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
 2018-11-07 23:16:02 +02:00