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2018-11-17gnu: Add libfaketime.Ludovic Courtès
* gnu/packages/check.scm (libfaketime): New variable.
2018-11-14gnu: bioinformatics: Return #t from all phases and snippets.Mark H Weaver
* 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.
2018-11-14gnu: databases: Return #t from all phases.Mark H Weaver
* 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.
2018-11-14gnu: compression: Return #t from all phases.Mark H Weaver
* gnu/packages/compression.scm (perl-compress-raw-zlib, java-snappy) (java-iq80-snappy, pzstd, java-tukaani-xz): Return #t from all phases.
2018-11-14gnu: check: Return #t from all phases.Mark H Weaver
* 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.
2018-11-14gnu: audio: Return #t from all phases.Mark H Weaver
* 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.
2018-11-14gnu: xorg: Return #t from all phases.Mark H Weaver
* gnu/packages/xorg.scm (xcompmgr) * gnu/packages/xdisorg.scm (xdotool, scrot, unclutter, xscreensaver) (tint2, nxbelld, xautolock): Return #t from all phases.
2018-11-14gnu: xml: Return #t from all phases.Mark H Weaver
* gnu/packages/xml.scm (python-libxml2, perl-xml-sax, xlsx2csv, libxls) (java-kxml2): Return #t from all phases.
2018-11-14gnu: video: Return #t from all phases.Mark H Weaver
* gnu/packages/video.scm (youtube-dl-gui, avidemux, xvid, twitchy, aegisub): Return #t from all phases, use invoke where appropriate, and remove vestigial plumbing.
2018-11-14gnu: perl: Return #t from all phases.Mark H Weaver
* 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.
2018-11-14gnu: networking: Return #t from all phases.Mark H Weaver
* 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.
2018-11-14gnu: linux: Return #t from all phases.Mark H Weaver
* gnu/packages/linux.scm (iproute, ntfs-3g, cpupower, radeontop, tlp): Return #t from all phases.
2018-11-14gnu: image: Return #t from all phases.Mark H Weaver
* gnu/packages/image.scm (libpng-apng, pngcrush, leptonica, zimg) (perceptualdiff): Return #t from all phases.
2018-11-14gnu: admin: Return #t from all phases.Mark H Weaver
* gnu/packages/admin.scm (daemon-tools, rottlog, wpa-supplicant-minimal) (wakelan, cpulimit, nmap, sunxi-tools): Return #t from all phases.
2018-11-14gnu: texlive-bin: Fix substitution regexp.Ludovic Courtès
This is a followup to commit be200ef316478585059041a33d8f4287017dea5a. * gnu/packages/tex.scm (texlive-bin)[arguments]: In 'disable-failing-test' phase, escape "|" characters.
2018-11-14Merge branch 'master' into core-updatesMarius Bakke
2018-11-14gnu: aide: Provide libpcre.a and libz.a.Marius Bakke
* gnu/packages/admin.scm (aide)[inputs]: Add PCRE:STATIC and ZLIB:STATIC.
2018-11-14gnu: xf86-video-r128: Update to 6.12.0.Marius Bakke
* gnu/packages/xorg.scm (xf86-video-r128): Update to 6.12.0.
2018-11-14gnu: mtools: Update to 4.0.20.Marius Bakke
* gnu/packages/mtools.scm (mtools): Update to 4.0.20. [source](uri): Change to 'bz2' compressed tarball.
2018-11-14gnu: nano: Update to 3.2.Marius Bakke
* gnu/packages/nano.scm (nano): Update to 3.2.
2018-11-14gnu: sudo: Update to 1.8.26.Marius Bakke
* gnu/packages/admin.scm (sudo): Update to 1.8.26.
2018-11-14gnu: feh: Update to 3.0.Marius Bakke
* gnu/packages/image-viewers.scm (feh): Update to 3.0.
2018-11-14gnu: Add jamm.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (jamm): New variable.
2018-11-14gnu: Add r-ouch.Ricardo Wurmus
* gnu/packages/cran.scm (r-ouch): New variable.
2018-11-14gnu: Add r-activity.Ricardo Wurmus
* gnu/packages/cran.scm (r-activity): New variable.
2018-11-14gnu: Add r-circular.Ricardo Wurmus
* gnu/packages/cran.scm (r-circular): New variable.
2018-11-14gnu: Add r-overlap.Ricardo Wurmus
* gnu/packages/cran.scm (r-overlap): New variable.
2018-11-14gnu: Add r-acdm.Ricardo Wurmus
* gnu/packages/cran.scm (r-acdm): New variable.
2018-11-14gnu: Add r-acd.Ricardo Wurmus
* gnu/packages/cran.scm (r-acd): New variable.
2018-11-14gnu: Add r-abn.Ricardo Wurmus
* gnu/packages/cran.scm (r-abn): New variable.
2018-11-14gnu: Add r-rjags.Ricardo Wurmus
* gnu/packages/cran.scm (r-rjags): New variable.
2018-11-14gnu: Add jags.Ricardo Wurmus
* gnu/packages/statistics.scm (jags): New variable.
2018-11-13gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene): Update to 3.4.4.
2018-11-13gnu: r-org-mm-eg-db: Update to 3.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
2018-11-13gnu: r-org-dm-eg-db: Update to 3.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
2018-11-13gnu: r-org-ce-eg-db: Update to 3.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
2018-11-13gnu: r-org-hs-eg-db: Update to 3.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
2018-11-13gnu: r-genomationdata: Update to 1.14.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
2018-11-13gnu: r-go-db: Update to 3.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
2018-11-13gnu: r-genomeinfodbdata: Update to 1.2.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
2018-11-13gnu: spice-vdagent: Fix typo in desktop file.Taegil Bae
Fixes <https://bugs.gnu.org/33346>. * gnu/packages/spice.scm (spice-vdagent)[arguments]: Fix typo in 'patch-spice-vdagent.desktop' phase.
2018-11-14gnu: ImageMagick: Update to 6.9.10-14.Alex Vong
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-14.
2018-11-13gnu: libssh: Fetch source over HTTPS.Leo Famulari
* gnu/packages/ssh.scm (libssh)[source]: Use HTTPS URL.
2018-11-13gnu: direnv: Build with Go 1.9.Leo Famulari
* gnu/packages/shellutils.scm (direnv)[native-inputs]: Remove go. [inputs]: Add go-1.9.
2018-11-13gnu: Poppler: Fix CVE-2018-19149.Leo Famulari
* 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.
2018-11-13gnu: certbot, python-acme: Update to 0.28.0.Leo Famulari
* gnu/packages/tls.scm (certbot, python-acme): Update to 0.28.0.
2018-11-13gnu: guix: Update to f5a2724.Ludovic Courtès
* gnu/packages/package-management.scm (guix): Update to f5a2724.
2018-11-13gnu: restic: Fix build phase.Oleg Pykhalov
* gnu/packages/backup.scm (restic)[arguments]: Set "HOME" environment variable in build phase.
2018-11-13gnu: c-toxcore: Fetch sources from git.Ricardo Wurmus
* gnu/packages/messaging.scm (c-toxcore)[source]: Fetch from git.
2018-11-13gnu: wine-staging: Update to 3.20.Rutger Helling
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.20. * gnu/packages/wine.scm (wine-staging): Update to 3.20.
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