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branch core-updates updated (ffddb42 -> 3a23036)
From: |
Marius Bakke |
Subject: |
branch core-updates updated (ffddb42 -> 3a23036) |
Date: |
Mon, 22 Oct 2018 17:09:38 -0400 (EDT) |
mbakke pushed a change to branch core-updates
in repository guix.
from ffddb42 Merge branch 'master' into core-updates
adds 673364c gnu: Add emacs-slime-repl-ansi-color.
adds 9ab6c68 gnu: address@hidden: Update to 4.4.162.
adds c4a7a51 gnu: address@hidden: Update to 4.9.135.
adds 668834c gnu: address@hidden: Update to 4.14.78.
adds f7618bf gnu: linux-libre: Update to 4.18.16.
adds 9a6808e gnu: tophat: Update to 2.1.1.
adds 1d18ee6 gnu: bwa-pssm: Fetch from git.
adds 2ba2d62 gnu: python2-bx-python: Update to 0.8.2.
adds f5cec00 gnu: Add python-bx-python.
adds 8640f9e gnu: python-twobitreader: Update to 3.1.6.
adds 7321920 gnu: crossmap: Update to 0.2.9.
adds a5b0038 gnu: Add python-dnaio.
adds 6b7260b gnu: cutadapt: Update to 1.18.
adds 6b31040 gnu: python-py2bit: Update to 0.3.0.
adds 42643fc gnu: python-dendropy: Fetch from git.
adds e6b65bd gnu: eolie: Update to 0.9.45.
adds 4d494a4 gnu: deeptools: Update to 3.1.3.
adds 7a1e62c gnu: delly: Update to 0.7.9.
adds 1c06399 gnu: diamond: Fetch from git.
adds 49b2e86 gnu: Add texlive-latex-doi.
adds 893fbf1 gnu: Add texlive-generic-listofitems.
adds 1d0669f gnu: Add texlive-latex-readarray.
adds f50f343 gnu: Add texlive-latex-verbatimbox.
adds 4348a05 gnu: Add texlive-latex-examplep.
adds 5748fe5 gnu: discrover: Fetch from git.
adds 949fa34 gnu: eigensoft: Update to 7.2.1.
adds c96ca68 gnu: edirect: Update to 10.2.20181018.
adds 38622cc gnu: express-beta-diversity: Update to 1.0.8.
adds 0db75f7 gnu: fasttree: Use INVOKE.
adds 50e33c3 gnu: python-screed: Update to 1.0.
adds 4b8f453 gnu: khmer: Update to 2.1.2.
adds 4d93a9a gnu: seqan: Update to 2.4.0.
adds f8ee22f gnu: flexbar: Update to 3.4.0.
adds aff38cb install: Make /var/guix/…/guix-profile a relative symlink.
adds 16d2125 gnu: Add python-ilinkedlist.
adds ff59835 gnu: light: Update to 1.2.
adds df71447 gnu: OpenSSH: Update to 7.9p1.
adds dc3dfa1 gnu: knot: Update to 2.7.3.
adds 69c69c2 gnu: libmpdclient: Update to 2.16.
adds 318ec0a gnu: livemedia-utils: Update to 2018.10.17 [fixes
CVE-2018-4013].
adds 09aa3d0 gnu: Add r-ruvseq.
adds 3a352a4 gnu: snap: Update to 4.2.2.2.
adds 51f4e36 gnu: Add emacs-scribble-mode.
adds 50401c2 gnu: libqtxdg: Update to 3.2.0.
adds 9861bcd gnu: liblxqt: Update to 0.13.0.
adds b456883 gnu: python-mistune: Update to 0.8.4.
adds f232c87 gnu: python-lazy-object-proxy: Update to 1.3.1.
adds 3ad0a35 gnu: Add GN.
adds f38eedd gnu: samba: Update to 4.8.6.
adds 3743e11 gnu: libmd: Update to 1.0.1.
adds 4350cac gnu: xf86-input-libinput: Update to 0.28.1.
adds 90fb136 gnu: xorg-server: Update to 1.20.2.
adds e810de3 gnu: python-m2crypto: python-typing is only needed for
python2.
adds cb61baf gnu: python-m2crypto: Update to 0.30.1.
adds 1b50df7 gnu: python-markdown: Update home page.
adds 9b9aaa5 gnu: python-markdown: Update to 3.0.1.
adds 47d7c10 gnu: python-sure: Update to 1.4.11.
adds 63abd1e gnu: python-pymongo: Update to 3.7.2.
new c166a88 Merge branch 'master' into core-updates
new 3a23036 gnu: python-datrie: Fix FTBFS with Python 3.7.
The 2 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
gnu/build/install.scm | 2 +-
gnu/local.mk | 4 -
gnu/packages/bioconductor.scm | 26 +
gnu/packages/bioinformatics.scm | 658 +++++++++++----------
gnu/packages/build-tools.scm | 58 ++
gnu/packages/crypto.scm | 4 +-
gnu/packages/dns.scm | 4 +-
gnu/packages/education.scm | 8 +-
gnu/packages/emacs.scm | 49 +-
gnu/packages/gnome.scm | 6 +-
gnu/packages/linux.scm | 46 +-
gnu/packages/lxqt.scm | 72 ++-
gnu/packages/mpd.scm | 4 +-
.../patches/crossmap-allow-system-pysam.patch | 121 ----
.../patches/delly-use-system-libraries.patch | 56 --
gnu/packages/patches/liblxqt-include.patch | 14 -
.../patches/tophat-build-with-later-seqan.patch | 24 -
gnu/packages/python-crypto.scm | 12 +-
gnu/packages/python.scm | 62 +-
gnu/packages/samba.scm | 4 +-
gnu/packages/ssh.scm | 4 +-
gnu/packages/tex.scm | 189 ++++++
gnu/packages/video.scm | 4 +-
gnu/packages/xorg.scm | 8 +-
24 files changed, 805 insertions(+), 634 deletions(-)
delete mode 100644 gnu/packages/patches/crossmap-allow-system-pysam.patch
delete mode 100644 gnu/packages/patches/delly-use-system-libraries.patch
delete mode 100644 gnu/packages/patches/liblxqt-include.patch
delete mode 100644 gnu/packages/patches/tophat-build-with-later-seqan.patch
- branch core-updates updated (ffddb42 -> 3a23036),
Marius Bakke <=