Accepted scythe 0.994-1 (source amd64) into unstable, unstable

Changed-By: Kevin Murray s...@kdmurray.id.au Description: scythe - Bayesian adaptor trimmer for sequencing reads Closes: 776179 Changes: scythe (0.994-1) unstable; urgency=medium . * Initial release. (Closes: #776179) Checksums-Sha1: 6d717167c7f9b623d6fc1c7bdf9104723faa68d9 1922

Accepted sphinxcontrib-autoprogram 0.1.1-2 (source all) into unstable, unstable

: Debian Med Packaging Team debian-med-packag...@lists.alioth.debian.org Changed-By: Kevin Murray s...@kdmurray.id.au Description: python3-sphinxcontrib.autoprogram - automated documentation of CLI programs for Sphinx (Python 3) sphinxcontrib-autoprogram - automated documentation of CLI programs

Accepted dwgsim 0.1.11-2 (source amd64) into unstable

-BEGIN PGP SIGNED MESSAGE- Hash: SHA512 Format: 1.8 Date: Mon, 26 Oct 2015 11:54:58 +1100 Source: dwgsim Binary: dwgsim Architecture: source amd64 Version: 0.1.11-2 Distribution: unstable Urgency: medium Maintainer: Kevin Murray <s...@kdmurray.id.au> Changed-By: Kevin Mur

Accepted python-skbio 0.4.0-3 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: python-skbio - Python data structures, algorithms, educational resources for bio python3-skbio - Python3 data structures, algorithms, educational resources for bi Changes: python-skbio (0.4.0-3) unsta

Accepted scythe 0.994-2 (source amd64) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: scythe - Bayesian adaptor trimmer for sequencing reads Changes: scythe (0.994-2) unstable; urgency=low . * Fix copyright of kseq.h in d/control * Patch Makefile to pull in hardening flags correctly * Add com

Accepted dwgsim 0.1.11-1 (source amd64) into unstable, unstable

-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Wed, 23 Sep 2015 09:14:48 +1000 Source: dwgsim Binary: dwgsim Architecture: source amd64 Version: 0.1.11-1 Distribution: unstable Urgency: low Maintainer: Kevin Murray <s...@kdmurray.id.au> Changed-By: Kevin Mur

Accepted snakemake 3.4.2+dfsg-1 (source all) into unstable, unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Closes: 798824 Changes: snakemake (3.4.2+dfsg-1) unstable; urgency=low . * Initial release (Closes: #798824) Checksums-Sha1: 5d44a4c9cc21151426ef4b14258adc617

Accepted axe-demultiplexer 0.2.8-1 (source amd64) into unstable, unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Closes: 794088 Changes: axe-demultiplexer (0.2.8-1) unstable; urgency=medium . * Initial debian release. (Closes: #794088) Ch

Accepted wgsim 0.3.1-r13-1 (source amd64) into unstable, unstable

Changed-By: Kevin Murray s...@kdmurray.id.au Description: wgsim - simulate sequencing reads from a reference genome Closes: 791395 Changes: wgsim (0.3.1-r13-1) unstable; urgency=low . * Initial release (Closes: #791395) Checksums-Sha1: f359cb059349ec618282a46cdf303d4fbeac5493 1905

Accepted bamtools 2.4.0+dfsg-2 (source amd64) into unstable

<debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: bamtools - toolkit for manipulating BAM (genome alignment) files libbamtools-dev - C++ API for manipulating BAM (genome alignment) files libbamtools2.4.0 - dynamic library for mani

Accepted axe-demultiplexer 0.3.0+dfsg-2 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Closes: 807184 Changes: axe-demultiplexer (0.3.0+dfsg-2) unstable; urgency=medium . * Depend on GSL2 for the ongoing GSL transi

Accepted python-skbio 0.4.1-1 (source amd64 all) into unstable, unstable

<debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: python-skbio - Python data structures, algorithms, educational resources for bio python-skbio-doc - Data structures, algorithms, educational resources for bioinforma p

Accepted filo 1.1.0-3 (source amd64) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: filo - FILe and stream Operations Closes: 716357 Changes: filo (1.1.0-3) unstable; urgency=medium . * Fix Mayhem-induced segfault Closes: #716357 * Re-import tarball with pristine-tar Ch

Accepted libqes 0.1.21-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libqes-dev - DNA sequence parsing library -- development libqes0- DNA sequence parsing library Closes: 808710 Changes: libqes (0.1.21-1) unstable; urgency=medium . * New upstream release (Closes: #808710) Ch

Accepted axe-demultiplexer 0.3.1-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Closes: 808570 Changes: axe-demultiplexer (0.3.1-1) unstable; urgency=medium . * Imported Upstream version 0.3.1 (Closes: #808570) *

Accepted libqes 0.1.20-1 (source amd64) into unstable, unstable

-BEGIN PGP SIGNED MESSAGE- Hash: SHA512 Format: 1.8 Date: Wed, 21 Oct 2015 16:20:26 +1100 Source: libqes Binary: libqes-dev libqes0 Architecture: source amd64 Version: 0.1.20-1 Distribution: unstable Urgency: medium Maintainer: Kevin Murray <s...@kdmurray.id.au> Changed-By: Kevin

Accepted axe-demultiplexer 0.3.0+dfsg-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Closes: 801696 801900 Changes: axe-demultiplexer (0.3.0+dfsg-1) unstable; urgency=medium . * New upstream release, refresh pat

Accepted snakemake 3.4.2+dfsg-2 (source all) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Changes: snakemake (3.4.2+dfsg-2) unstable; urgency=low . * Fix watch file and d/control with new upstream URL Checksums-Sha1: 040ae1fb6e1292cd01643709cfeb54653

Accepted dwgsim 0.1.11-3 (source amd64) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: dwgsim - short sequencing read simulator Changes: dwgsim (0.1.11-3) unstable; urgency=medium . [Andreas Tille] * Correct Maintainer to Debian Med Checksums-Sha1: 4115769fd1a21b412061257d73ac8da93d2bf61b 1899 dwg

Accepted sphinxcontrib-autoprogram 0.1.2-1 (source all) into unstable

Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: python3-sphinxcontrib.autoprogram - automated documentation of CLI programs for Sphinx (Python 3) sphinxcontrib-autoprogram - automated documentation of

Accepted snakemake 3.5.4+dfsg-1 (source all) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Changes: snakemake (3.5.4+dfsg-1) unstable; urgency=medium . * Imported Upstream version 3.5.4+dfsg Checksums-Sha1: 573978e1c184f47ff1599c632b096579cb5c3cb4 2115 sna

Accepted scrm 1.6.1-1 (source amd64) into unstable, unstable

-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Fri, 08 Jan 2016 12:02:44 +1100 Source: scrm Binary: scrm Architecture: source amd64 Version: 1.6.1-1 Distribution: unstable Urgency: low Maintainer: Kevin Murray <s...@kdmurray.id.au> Changed-By: Kevin Murray <s...@kdmur

Accepted axe-demultiplexer 0.3.1-3 (source) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Changes: axe-demultiplexer (0.3.1-3) unstable; urgency=medium . * Syntax fix for autopkgtest Checksums-Sha1: d0d2f732e456f5588c1d6b5b28ff

Accepted phyml 3:3.2.0+dfsg-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: phyml - Phylogenetic estimation using Maximum Likelihood Changes: phyml (3:3.2.0+dfsg-1) unstable; urgency=medium . [ Kevin Murray ] * New upstream release * d/watch: Source has changed location on Githu

Accepted libzstd 0.4.7-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd0 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Changes: libzstd (0.4.7-1) unsta

Accepted axe-demultiplexer 0.3.1-2 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Changes: axe-demultiplexer (0.3.1-2) unstable; urgency=medium . * Add autopkgtest Checksums-Sha1: 593ec701027b52c6f0397e39fbc8032cb

Accepted snakemake 3.5.5+dfsg-1 (source all) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Changes: snakemake (3.5.5+dfsg-1) unstable; urgency=low . * Imported new upstream version 3.5.5 * Use filenamemangle in d/watch Ch

Accepted scrm 1.7.0-1 (source amd64) into unstable

-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Tue, 09 Feb 2016 17:47:10 -0800 Source: scrm Binary: scrm Architecture: source amd64 Version: 1.7.0-1 Distribution: unstable Urgency: low Maintainer: Kevin Murray <s...@kdmurray.id.au> Changed-By: Kevin Murray <s...@kdmur

Accepted libzstd 0.4.5-1 (source amd64) into unstable, unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd0 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 806767 Changes: libz

Accepted dawg 1.2-1 (source amd64) into unstable, unstable

hanged-By: Kevin Murray <s...@kdmurray.id.au> Description: dawg - program to simulate the evolution of recombinant DNA sequences Closes: 806828 Changes: dawg (1.2-1) unstable; urgency=low . * Initial release (Closes: #806828) Checksums-Sha1: 6112f54037ef725c990a38156b6e3057d0fb422f 185

Accepted scythe 0.994-3 (source) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: scythe - Bayesian adaptor trimmer for sequencing reads Changes: scythe (0.994-3) unstable; urgency=medium . [ Kevin Murray ] * Comment out watchfile, upstream doesn't actually provide tags on github * Fix vcs git U

Accepted python-skbio 0.4.2-1 (source) into unstable

ian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: python-skbio - Python data structures, algorithms, educational resources for bio python-skbio-doc - Data structures, algorithms, educational resources for bioinforma python3-skbio -

Accepted axe-demultiplexer 0.3.1-4 (source) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Changes: axe-demultiplexer (0.3.1-4) unstable; urgency=low . [ Kevin Murray ] * Fix Vcs-git URL . [ Mattia Rizzolo ] * debian/rules:

Accepted libzstd 0.5.1-1 (source) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd0 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 813854 Changes: libz

Accepted libzstd 0.8.0-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd0 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 834114 Changes: libz

Accepted snakemake 3.7.1+dfsg-1 (source all) into unstable

org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Changes: snakemake (3.7.1+dfsg-1) unstable; urgency=low . * Imported new upstream version 3.7.1 * Bump standards version to 3.9.8 Ch

Accepted snakemake 3.9.1-2 (source all) into unstable

org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: snakemake - pythonic workflow management system Changes: snakemake (3.9.1-2) unstable; urgency=medium . * Future-proof patch to work-around missing snakemake binary when running tests before installation * Backport f

Accepted snakemake 3.10.0-1 (source all) into unstable

org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: snakemake - pythonic workflow management system Changes: snakemake (3.10.0-1) unstable; urgency=medium . * New upstream version 3.10.0 * Refresh patches Checksums-Sha1: 2d591e11607435eadca5f095ea066ce2a8108575 2150 snak

Accepted libzstd 1.0.0-1 (source amd64) into unstable, unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd1 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 836574 Changes: libz

Accepted libzstd 1.1.0-1 (source) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd1 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 839960 Changes: libz

Accepted python-skbio 0.5.1-1 (source all amd64) into unstable

med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: python-skbio-doc - Data structures, algorithms, educational resources for bioinforma python3-skbio - Python3 data structures, algorithms, educational resources for bi Changes: python-sk

Accepted libzstd 1.1.1-1 (source) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: libzstd-dev - fast lossless compression algorithm -- development files libzstd1 - fast lossless compression algorithm zstd - fast lossless compression algorithm -- CLI tool Closes: 844248 Changes: libz

Accepted r-bioc-limma 3.30.6+dfsg-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: r-bioc-limma - linear models for microarray data Changes: r-bioc-limma (3.30.6+dfsg-1) unstable; urgency=medium . [ Kevin Murray ] * New upstream version 3.30.6 * Add myself to uploaders . [ A

Accepted snakemake 3.9.0+dfsg-1 (source all) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Closes: 845737 Changes: snakemake (3.9.0+dfsg-1) unstable; urgency=medium . [ Kevin Murray ] * New upstream version 3.9.0 (Closes: #845737) . [ Andreas Tille ]

Accepted snakemake 3.8.2+dfsg-1 (source all) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: snakemake - pythonic workflow management system Changes: snakemake (3.8.2+dfsg-1) unstable; urgency=medium . * Update d/watch with bitbucket's new tag page * New upstream version 3.8.2 * Patch to avoid test fail

Accepted python-cutadapt 1.12-1 (source all amd64) into unstable

<debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: cutadapt - Clean biological sequences from high-throughput sequencing reads python-cutadapt - Clean biological sequences from high-throughput sequencing reads python3-cuta

Accepted axe-demultiplexer 0.3.2+dfsg1-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: axe-demultiplexer - Trie-based DNA sequencing read demultiplexer Changes: axe-demultiplexer (0.3.2+dfsg1-1) unstable; urgency=medium . [ Kevin Murray ] * New upstream version 0.3.2 * Bu

Accepted adapterremoval 2.2.0-1 (source amd64 all) into unstable

<debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <s...@kdmurray.id.au> Description: adapterremoval - rapid adapter trimming, identification, and read merging of gene adapterremoval-examples - rapid adapter trimming, identification, and read merging (example Cl

Accepted iqtree 1.5.2+dfsg-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: iqtree - efficient phylogenetic software by maximum likelihood Closes: 846958 Changes: iqtree (1.5.2+dfsg-1) unstable; urgency=medium . * New upstream version 1.5.2+dfsg (Closes: #846958) * Enable build of MPI-

Accepted libqes 0.2.7-1 (source amd64) into unstable

kag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: libqes-dev - DNA sequence parsing library -- development libqes0- DNA sequence parsing library Changes: libqes (0.2.7-1) unstable; urgency=medium . * New upstream release (fixes major parsing bug) * Upda

Accepted adapterremoval 2.2.2-1 (source amd64 all) into unstable

<debian-med-packag...@lists.alioth.debian.org> Changed-By: Kevin Murray <kdmf...@gmail.com> Description: adapterremoval - rapid adapter trimming, identification, and read merging of gene adapterremoval-examples - rapid adapter trimming, identification, and read merging (exa