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* gnu: virglrenderer: Fix CVE-2017-6386.Leo Famulari2017-03-16
| | | | | | * gnu/packages/patches/virglrenderer-CVE-2017-6386.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/spice.scm (virglrenderer)[source]: Use it.
* gnu: password-store: Fix compatibility with GnuPG 2.1.19.Clément Lassieur2017-03-16
| | | | | | | | * gnu/packages/patches/password-store-gnupg-compat.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/password-utils.scm (password-store)[source]: Use it. Signed-off-by: Clément Lassieur <clement@lassieur.org>
* gnu: Add r-seurat.Raoul Jean Pierre Bonnal2017-03-16
| | | | | | * gnu/packages/bioinformatics.scm (r-seurat): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: sra-tools: Update to 2.8.2-1.Ricardo Wurmus2017-03-16
| | | | | * gnu/packages/bioinformatics.scm (sra-tools): Update to 2.8.2-1. [arguments]: Add DEFAULT_CRT and DEFAULT_KFG to make flags.
* gnu: ncbi-vdb: Install configuration files.Ricardo Wurmus2017-03-16
| | | | | * gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Add phase "install-configuration-files".
* gnu: ncbi-vdb: Override search path for java-ngs.Ricardo Wurmus2017-03-16
| | | | | | * gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Patch "package.prl" to ensure that java-ngs is found by the configure script; remove configure flag "--with-ngs-java-prefix".
* gnu: ncbi-vdb: Use modify-phases syntax.Ricardo Wurmus2017-03-16
| | | | | * gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use modify-phases syntax.
* gnu: ncbi-vdb: Update to 2.8.2.Ricardo Wurmus2017-03-16
| | | | * gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.8.2.
* gnu: ngs-sdk: Update to 1.3.0.Ricardo Wurmus2017-03-16
| | | | * gnu/packages/bioinformatics.scm (ngs-sdk): Update to 1.3.0.
* gnu: Add pzstd.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/compression.scm (pzstd): New variable.
* gnu: Add zstd.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/compression.scm (zstd): New variable.
* gnu: python-publicsuffix2: Update to 2.20160818.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/python.scm (python-publicsuffix2): Update to 2.20160818.
* gnu: awscli: Update to 1.11.63.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/python.scm (awscli): Update to 1.11.63.
* gnu: python-botocore: Update to 1.5.26.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/python.scm (python-botocore): Update to 1.5.26.
* gnu: python-ptyprocess: Update to 0.5.1.Tobias Geerinckx-Rice2017-03-16
| | | | * gnu/packages/python.scm (python-ptyprocess): Update to 0.5.1.
* gnu: Add prboom-plus.Kei Kebreau2017-03-15
| | | | * gnu/packages/games.scm (prboom-plus): New variable.
* gnu: Add tftp-hpa.Gábor Boskovits2017-03-15
| | | | | | * gnu/packages/networking.scm (tftp-hpa): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: guile-next: Update to 2.2.0.Andy Wingo2017-03-15
| | | | * gnu/packages/guile.scm (guile-next): Update to 2.2.0.
* gnu: profanity: Make the source URL version-agnostic.Leo Famulari2017-03-15
| | | | | * gnu/packages/messaging.scm (profanity)[source]: Use (version) in the source URL.
* gnu: units: Update to 2.14.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/maths.scm (units): Update to 2.14.
* gnu: no-more-secrets: Update to 0.3.2.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/games.scm (no-more-secrets): Update to 0.3.2.
* gnu: mailutils: Update to 3.2.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/mail.scm (mailutils): Update to 3.2.
* gnu: Use INSTALL-FILE where appropriate.Tobias Geerinckx-Rice2017-03-15
| | | | | | | | | | | | * gnu/packages/admin.scm (wpa-supplicant-minimal): Substitute the simpler INSTALL-FILE for COPY-FILE when invoked with redundant arguments. * gnu/packages/bioinformatics.scm (couger, aragorn, express-beta-diversity, edirect, fasttree, rsem, samtools-0.1): Likewise. * gnu/packages/code.scm (withershins): Likewise. * gnu/packages/conky.scm (conky): Likewise. * gnu/packages/debug.scm (delta, american-fuzzy-lop): Likewise. * gnu/packages/emacs.scm (emacs-mit-scheme-doc): Likewise. * gnu/packages/engineering.scm (librecad): Likewise.
* gnu: cryptsetup: Update to 1.7.4.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/cryptsetup.scm (cryptsetup): Update to 1.7.4.
* gnu: man-pages: Update to 4.10.Tobias Geerinckx-Rice2017-03-15
| | | | | * gnu/packages/man.scm (man-pages): Update to 4.10. [home-page]: Use HTTPS.
* gnu: Add profanity.Mekeor Melire2017-03-15
| | | | | | * gnu/packages/messaging.scm (profanity): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: Add libstrophe.Mekeor Melire2017-03-15
| | | | | | * gnu/packages/messaging.scm (libstrophe): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: Add libmesode.Mekeor Melire2017-03-15
| | | | | | * gnu/packages/messaging.scm (libmesode): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: bitcoin-core: Update to 0.14.0.Leo Famulari2017-03-15
| | | | * gnu/packages/finance.scm (bitcoin-core): Update to 0.14.0.
* gnu: mariadb: Update to 10.1.22 [fixes CVE-2017-3302 and CVE-2017-3313].Marius Bakke2017-03-15
| | | | * gnu/packages/databases.scm (mariadb): Update to 10.1.22.
* gnu: python-waf: Update to 1.9.8.Efraim Flashner2017-03-15
| | | | | * gnu/packages/python.scm (python-waf, python2-waf): Update to 1.9.8. [home-page]: Use https.
* gnu: direnv: Update to 2.11.3.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/shellutils.scm (direnv): Update to 2.11.3.
* gnu: conky: Update to 1.10.6.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/conky.scm (conky): Update to 1.10.6.
* gnu: obs: Update to 18.0.1.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/video.scm (obs): Update to 18.0.1.
* gnu: youtube-dl: Update to 2017.03.15.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/video.scm (youtube-dl): Update to 2017.03.15.
* gnu: stress-make: Fix description.Tobias Geerinckx-Rice2017-03-15
| | | | | * gnu/packages/debug.scm (stress-make)[description]: Fix typo. Avoid ambiguous use of ‘in order’.
* gnu: znc: Update to 1.6.5.Tobias Geerinckx-Rice2017-03-15
| | | | * gnu/packages/messaging.scm (znc): Update to 1.6.5.
* gnu: grue-hunter: Correctly install documentation.Tobias Geerinckx-Rice2017-03-15
| | | | | * gnu/packages/games.scm (grue-hunter)[arguments]: Install and populate ‘/share/doc/grue-hunter’ as a directory, not a plain file.
* gnu: samtools: End installation phases with truth.Tobias Geerinckx-Rice2017-03-15
| | | | | * gnu/packages/bioinformatics.scm (samtools, samtools-0.1)[arguments]: Return #T instead of the undefined results of COPY-FILE or INSTALL-FILE.
* gnu: w3m: Update to 0.5.3+git20170102 [security fixes].Leo Famulari2017-03-14
| | | | | | | See 'NEWS' and 'ChangeLog' in the source distribution for more information about the security-related bug fixes. * gnu/packages/w3m.scm (w3m): Update to 0.5.3+git20170102.
* Revert "gnu: gitolite: Fix shebangs in hooks."Leo Famulari2017-03-14
| | | | | | | | | | This change embedded store references in the shebangs of scripts that were meant to be copied out of the store. Those scripts would break when the interpreters expected by the shebangs were garbage collected. <https://debbugs.gnu.org/cgi/bugreport.cgi?bug=25966#28> This reverts commit d0c16adb190c7244ee3ef1329cba78a015ae5d10.
* Revert "gnu: nss: Use 'modify-phases' syntax."Marius Bakke2017-03-14
| | | | This reverts commit 87f1c7efc18f8996b0b2817a5f7b84eebe2ddf5a.
* Revert "gnu: nss, nss-certs: Update to 3.29.3."Marius Bakke2017-03-14
| | | | | | | Hydra failed to build this version. See discussion at https://lists.gnu.org/archive/html/guix-devel/2017-03/msg00408.html. This reverts commit 4f3dcdd99ba13ab3bdbf1e014afcd076cd95fac7.
* gnu: Add ocaml-ppx-typerep-conv.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-typerep-conv): New variable.
* gnu: Add ocaml-ppx-let.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-let): New variable.
* gnu: Add ocaml-ppx-enumerate.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-enumerate): New variable.
* gnu: Add ocaml-ppx-assert.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-assert): New variable.
* gnu: Add ocaml-ppx-here.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-here): New variable.
* gnu: Add ocaml-ppx-variants-conv.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-variants-conv): New variable.
* gnu: Add ocaml-ppx-sexp-conv.Julien Lepiller2017-03-14
| | | | * gnu/packages/ocaml.scm (ocaml-ppx-sexp-conv): New variable.
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