Accepted singularity-container 3.1.1+ds-1 (source) into unstable

2019-05-15 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Wed, 15 May 2019 02:04:21 -0400 Source: singularity-container Binary: singularity-container Architecture: source Version: 3.1.1+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian HPC Team Changed-By: Afif Elghraoui

Accepted nvchecker 1.4.3-1 (source) into unstable

2019-03-31 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sun, 31 Mar 2019 01:59:48 -0400 Source: nvchecker Binary: nvchecker Architecture: source Version: 1.4.3-1 Distribution: unstable Urgency: medium Maintainer: Afif Elghraoui Changed-By: Afif Elghraoui Description: nvchecker - new

Accepted nvchecker 1.3-2 (source) into unstable

2019-02-08 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Fri, 08 Feb 2019 21:45:38 -0500 Source: nvchecker Binary: nvchecker Architecture: source Version: 1.3-2 Distribution: unstable Urgency: medium Maintainer: Afif Elghraoui Changed-By: Afif Elghraoui Description: nvchecker - new

Accepted gridengine 8.1.9+dfsg-9 (source) into unstable

2019-02-04 Thread Afif Elghraoui
-drmaa-dev libdrmaa1.0-ruby Architecture: source Version: 8.1.9+dfsg-9 Distribution: unstable Urgency: medium Maintainer: Debian HPC Team Changed-By: Afif Elghraoui Description: gridengine-client - Utilities for Grid Engine queue management gridengine-common - Distributed resource management

Accepted singularity-container 3.0.3+ds-1 (source) into unstable

2019-01-30 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Wed, 30 Jan 2019 22:14:04 -0500 Source: singularity-container Binary: singularity-container Architecture: source Version: 3.0.3+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian HPC Team Changed-By: Afif Elghraoui

Accepted qperf 0.4.11-2 (source) into unstable

2019-01-27 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sun, 27 Jan 2019 18:17:05 -0500 Source: qperf Binary: qperf Architecture: source Version: 0.4.11-2 Distribution: unstable Urgency: low Maintainer: Debian HPC team Changed-By: Afif Elghraoui Description: qperf - Measure

Accepted swiglpk 4.65.0-1 (source) into unstable

2019-01-26 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sat, 26 Jan 2019 21:15:14 -0500 Source: swiglpk Binary: python-swiglpk python3-swiglpk Architecture: source Version: 4.65.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Science Maintainers Changed-By: Afif

Accepted optlang 1.4.4-1 (source) into unstable

2019-01-26 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sat, 26 Jan 2019 21:19:47 -0500 Source: optlang Binary: python-optlang python3-optlang Architecture: source Version: 1.4.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Science Maintainers Changed-By: Afif Elghraoui

Accepted nvchecker 1.3-1 (source all) into unstable, unstable

2019-01-19 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sat, 19 Jan 2019 01:37:25 -0500 Source: nvchecker Binary: nvchecker Architecture: source all Version: 1.3-1 Distribution: unstable Urgency: medium Maintainer: Afif Elghraoui Changed-By: Afif Elghraoui Description: nvchecker

Accepted singularity-container 2.6.1-2 (source) into unstable

2019-01-14 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Mon, 14 Jan 2019 21:23:04 -0500 Source: singularity-container Binary: singularity-container Architecture: source Version: 2.6.1-2 Distribution: unstable Urgency: medium Maintainer: Debian HPC Team Changed-By: Afif Elghraoui

Accepted singularity-container 2.6.1-1 (source) into unstable

2018-12-12 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Thu, 13 Dec 2018 01:47:28 -0500 Source: singularity-container Binary: singularity-container Architecture: source Version: 2.6.1-1 Distribution: unstable Urgency: high Maintainer: Debian HPC Team Changed-By: Afif Elghraoui

Accepted pyconfigure 0.2.3-2 (source) into unstable

2018-09-15 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sat, 15 Sep 2018 16:27:14 -0400 Source: pyconfigure Binary: pyconfigure Architecture: source Version: 0.2.3-2 Distribution: unstable Urgency: low Maintainer: Afif Elghraoui Changed-By: Afif Elghraoui Description: pyconfigure

Accepted adduser 3.118 (source) into unstable

2018-09-15 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sat, 15 Sep 2018 15:12:39 -0400 Source: adduser Binary: adduser Architecture: source Version: 3.118 Distribution: unstable Urgency: low Maintainer: Debian Adduser Developers Changed-By: Afif Elghraoui Description: adduser

Accepted sniffles 1.0.8+ds-2 (source) into unstable

2018-07-08 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Sun, 08 Jul 2018 00:49:22 -0400 Source: sniffles Binary: sniffles Architecture: source Version: 1.0.8+ds-2 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team Changed-By: Afif Elghraoui Description

Accepted singularity-container 2.5.2-1 (source) into unstable

2018-07-04 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Wed, 04 Jul 2018 15:06:29 -0400 Source: singularity-container Binary: singularity-container Architecture: source Version: 2.5.2-1 Distribution: unstable Urgency: high Maintainer: Debian HPC Team Changed-By: Afif Elghraoui

Accepted singularity-container 2.5.1-1 (source) into unstable

2018-05-03 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Changes: singularity-container (2.5.1-1) unstable; urgency=high . [ Yaroslav Halchenko ] * debian/control - Homepage

Accepted singularity-container 2.5.0-1 (source) into unstable

2018-04-30 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Changes: singularity-container (2.5.0-1) unstable; urgency=high . * New upstream version, including security updates

Accepted optlang 1.4.1-1 (source) into unstable

2018-04-22 Thread Afif Elghraoui
ain...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-optlang - sympy based mathematical programming language (Python 2) python3-optlang - sympy based mathematical programming language (Python 3) Changes: optlang (1.4.1-1) unstable; urgency=medium

Accepted python-easydev 0.9.35+dfsg-2 (source) into unstable

2018-04-22 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-easydev - common utilities to ease the development of Python packages (Pyth python3-easydev - common utilities to ease the development of Python packages (Pyth Closes: 896292 896402 Chan

Accepted singularity-container 2.4.5-1 (source) into unstable

2018-03-24 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Closes: 893133 Changes: singularity-container (2.4.5-1) unstable; urgency=medium . [ Yaroslav H

Accepted sniffles 1.0.8+ds-1 (source) into unstable

2018-03-24 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: sniffles - structural variation caller using third-generation sequencing Changes: sniffles (1.0.8+ds-1) unstable; urgency=medium . * New upstream version * Run tests * Refresh patches Ch

Accepted optlang 1.4.0-1 (source) into unstable

2018-03-24 Thread Afif Elghraoui
ain...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-optlang - sympy based mathematical programming language (Python 2) python3-optlang - sympy based mathematical programming language (Python 3) Changes: optlang (1.4.0-1) unstable; urgency=medium

Accepted canu 1.7+dfsg-1 (source) into unstable

2018-03-17 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: canu - single molecule sequence assembler for genomes Changes: canu (1.7+dfsg-1) unstable; urgency=medium . * New upstream version * Update handling of mhap bundled copy * Refresh patches * Use a wrapper script for

Accepted mhap 2.1.3+dfsg-1 (source) into unstable

2018-03-15 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: mhap - locality-sensitive hashing to detect long-read overlaps Changes: mhap (2.1.3+dfsg-1) unstable; urgency=medium . [ Afif Elghraoui ] * Bump minimum required libguava-java version * New upstream versio

Accepted gridengine 8.1.9+dfsg-8 (source) into unstable

2018-03-11 Thread Afif Elghraoui
-drmaa-dev libdrmaa1.0-ruby Architecture: source Version: 8.1.9+dfsg-8 Distribution: unstable Urgency: medium Maintainer: Debian HPC Team <debian-...@lists.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: gridengine-client - Utilities for Grid Engine queue management

Accepted smalr 1.1+dfsg-1 (source) into unstable

2018-03-11 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: smalr - interrogation of the methylation status of nucleotide sequencing Changes: smalr (1.1+dfsg-1) unstable; urgency=medium . * New upstream version * Adjust packaging for changes in source organization Ch

Accepted singularity-container 2.4.4-1 (source) into unstable

2018-03-10 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Changes: singularity-container (2.4.4-1) unstable; urgency=medium . * New upstream version * Refresh

Accepted smalr 1.0.1-1 (source all) into unstable, unstable

2018-02-27 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: smalr - interrogation of the methylation status of nucleotide sequencing Closes: 891485 Changes: smalr (1.0.1-1) unstable; urgency=medium . * Initial release (Closes: #891485) Checksums-Sha1: 5dda35b0e4793a7e9ac5ba5b8c25

Accepted trnascan-se 2.0.0-1 (source all amd64) into unstable

2018-02-24 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: trnascan-se - detection of transfer RNA genes in genomic sequence trnascan-se-common - detection of transfer RNA genes in genomic sequence (common files Changes: trnascan-se (2.0.0-1) unsta

Accepted nanopolish 0.9.0-1 (source) into unstable

2018-02-17 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: nanopolish - consensus caller for nanopore sequencing data Changes: nanopolish (0.9.0-1) unstable; urgency=medium . * New upstream version * Refresh patches * Bump upstream copyright year * Bump minimum required f

Accepted fast5 0.6.5-1 (source) into unstable

2018-02-17 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore

Accepted assemblytics 0~20170131+ds-2 (source) into unstable

2018-02-17 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: assemblytics - detect and analyze structural variants from a genome assembly Changes: assemblytics (0~20170131+ds-2) unstable; urgency=low . * Add d/upstream/metadata Checksums-Sha1: 6d7c82e0b1b57dbf5d878bca441e

Accepted singularity-container 2.4.2-4 (source) into unstable

2018-02-17 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Closes: 887192 Changes: singularity-container (2.4.2-4) unstable; urgency=low . * Standards-Version 4.1.3 * debhelper compat 1

Accepted assemblytics 0~20170131+ds-1 (source all) into unstable, unstable

2018-02-12 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: assemblytics - detect and analyze structural variants from a genome assembly Closes: 890220 Changes: assemblytics (0~20170131+ds-1) unstable; urgency=medium . * Initial release (Closes: #890220) Ch

Accepted mummer 3.23+dfsg-3 (source) into unstable

2018-02-11 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: mummer - Efficient sequence alignment of full genomes mummer-doc - Documentation for MUMmer Changes: mummer (3.23+dfsg-3) unstable; urgency=low . * Team upload . [ Fabian Klötzl ] * improve performance

Accepted swiglpk 1.4.4-2 (source) into unstable

2018-02-06 Thread Afif Elghraoui
ain...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-swiglpk - Plain Python bindings for the GNU Linear Programming Kit (Python python3-swiglpk - Plain Python bindings for the GNU Linear Programming Kit (Python Changes: swiglpk (1.4.4-2) unstable;

Accepted optlang 1.3.0-1 (source all) into unstable, unstable

2018-02-04 Thread Afif Elghraoui
nce-maintain...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-optlang - sympy based mathematical programming language (Python 2) python3-optlang - sympy based mathematical programming language (Python 3) Closes: 889611 Changes: optlang (1.3.0-1) unsta

Accepted swiglpk 1.4.4-1 (source amd64) into unstable, unstable

2018-02-04 Thread Afif Elghraoui
nce-maintain...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-swiglpk - Plain Python bindings for the GNU Linear Programming Kit (Python python3-swiglpk - Plain Python bindings for the GNU Linear Programming Kit (Python Closes: 889613 Changes: swig

Accepted singularity-container 2.4.2-3 (source) into unstable

2018-02-04 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: singularity-container - container platform focused on supporting "Mobility of Compute" Changes: singularity-container (2.4.2-3) unstable; urgency=low . * Add Recommends: squashfs-tools * lintian overrides: update

Accepted nanopolish 0.8.5-2 (source) into unstable

2018-02-04 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: nanopolish - consensus caller for nanopore sequencing data Changes: nanopolish (0.8.5-2) unstable; urgency=low . * Remove dependency on nonexistent package sse-support [i386] Checksums-Sha1: 50cc26b46b17040a66fff8c9cf094d541

Accepted nanopolish 0.8.5-1 (source) into unstable

2018-02-04 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: nanopolish - consensus caller for nanopore sequencing data Changes: nanopolish (0.8.5-1) unstable; urgency=medium . * New upstream version * d/control: + Add sse-support to Build-Depends for i386 + Rem

Accepted hinge 0.5.0-3 (source) into unstable

2018-02-04 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: hinge - long read genome assembler based on hinging Changes: hinge (0.5.0-3) unstable; urgency=low . * Mark spdlog patch as forwarded upstream * d/control: copy Depends into Build-Depends to allow migration to Testi

Accepted dascrubber 0~20180108-1 (source) into unstable

2018-02-04 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dascrubber - alignment-based scrubbing pipeline for DNA sequencing reads Changes: dascrubber (0~20180108-1) unstable; urgency=medium . * New upstream snapshot (git 3491b14) * Bump copyright years * Bump Stand

Accepted dazzdb 1.0+20180115-1 (source) into unstable

2018-02-04 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dazzdb - manage nucleotide sequencing read data Changes: dazzdb (1.0+20180115-1) unstable; urgency=medium . * New upstream snapshot (git 7104852) * Bump copyright years * Bump Standards-Version to 4.1.3

Accepted daligner 1.0+20180108-1 (source) into unstable

2018-02-04 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: daligner - local alignment discovery between long nucleotide sequencing read Changes: daligner (1.0+20180108-1) unstable; urgency=medium . * New upstream snapshot (git 233274a) * Bump Standards-Version to 4.1

Accepted sprai 0.9.9.23+dfsg-1 (source) into unstable

2018-02-04 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: sprai - single-pass sequencing read accuracy improver Changes: sprai (0.9.9.23+dfsg-1) unstable; urgency=medium . * New upstream version * Bump Standards-Version to 4.1.3 Checksums-Sha1: 9eb53ec1d8e67116c7b6c15e887c

Accepted gridengine 8.1.9+dfsg-7 (source) into unstable

2017-12-26 Thread Afif Elghraoui
-drmaa-dev libdrmaa1.0-ruby Architecture: source Version: 8.1.9+dfsg-7 Distribution: unstable Urgency: low Maintainer: Debian HPC Team <debian-...@lists.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: gridengine-client - Utilities for Grid Engine queue management

Accepted falcon 1.8.8-1 (source) into unstable

2017-12-16 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: falcon - diploid-aware genome assembly of single-molecule sequencing reads Closes: 864376 864378 Changes: falcon (1.8.8-1) unstable; urgency=medium . [ Afif Elghraoui ] * New upstream version * Update and refresh patches

Accepted fast5 0.6.4-2 (source) into unstable

2017-12-15 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore

Accepted hinge 0.5.0-1 (source amd64) into unstable, unstable

2017-12-12 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: hinge - long read genome assembler based on hinging Closes: 878962 Changes: hinge (0.5.0-1) unstable; urgency=medium . * Initial release (Closes: #878962) Checksums-Sha1: bb9729965847976dc86a3ba112a1a085d2ed36c1 2011 h

Accepted sniffles 1.0.7+ds-1 (source) into unstable

2017-11-22 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: sniffles - structural variation caller using third-generation sequencing Changes: sniffles (1.0.7+ds-1) unstable; urgency=medium . * New upstream version * Update/refresh patches Ch

Accepted gridengine 8.1.9+dfsg-6 (source) into unstable

2017-11-18 Thread Afif Elghraoui
-drmaa-dev libdrmaa1.0-ruby Architecture: source Version: 8.1.9+dfsg-6 Distribution: unstable Urgency: medium Maintainer: Debian Grid Engine Maintainers <pkg-gridengine-de...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: gridengine-client - Utilit

Accepted nanopolish 0.8.4-1 (source) into unstable

2017-11-10 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: nanopolish - consensus caller for nanopore sequencing data Changes: nanopolish (0.8.4-1) unstable; urgency=medium . [ Steffen Moeller ] * upstream/metadata RRID->SciCrunch . [ Afif Elghraoui ] * New u

Accepted fast5 0.6.4-1 (source) into unstable

2017-11-10 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore

Accepted sniffles 1.0.6+ds-1 (source) into unstable

2017-11-09 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: sniffles - structural variation caller using third-generation sequencing Changes: sniffles (1.0.6+ds-1) unstable; urgency=medium . * New upstream version * Install upstream README * d/watch: remove unnece

Accepted pbseqlib 0~20161219-2 (source) into unstable

2017-11-09 Thread Afif Elghraoui
Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libblasr - tools for aligning PacBio reads to target sequences libblasr-dev - tools for aligning PacBio reads to target sequences

Accepted python-colormap 1.0.1-1 (source all) into unstable, unstable

2017-10-20 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-colormap - ease manipulation of matplotlib colormaps and color codecs (Pytho python3-colormap - ease manipulation of matplotlib colormaps and color codecs (Pytho Closes: 878963 Chan

Accepted dazzdb 1.0+20171014-1 (source) into unstable

2017-10-19 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dazzdb - manage nucleotide sequencing read data Changes: dazzdb (1.0+20171014-1) unstable; urgency=medium . * New upstream snapshot (git 8ab7daf) * Update and refresh patches * Bump Standards-Version to 4.1

Accepted dascrubber 0~20171015-1 (source) into unstable

2017-10-19 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dascrubber - alignment-based scrubbing pipeline for DNA sequencing reads Changes: dascrubber (0~20171015-1) unstable; urgency=medium . [ Steffen Moeller ] * Created debian/upstream/metadata with refs to

Accepted daligner 1.0+20171010-2 (source) into unstable

2017-10-19 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: daligner - local alignment discovery between long nucleotide sequencing read Changes: daligner (1.0+20171010-2) unstable; urgency=low . [ Steffen Moeller ] * [debian/upstream/metadata] Reference to OMICtools added. Ch

Accepted daligner 1.0+20171010-1 (source) into unstable

2017-10-19 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: daligner - local alignment discovery between long nucleotide sequencing read Changes: daligner (1.0+20171010-1) unstable; urgency=medium . * New upstream snapshot (git b966696) * Bump Standards Version to 4.1

Accepted python-easydev 0.9.35+dfsg-1 (source all) into unstable, unstable

2017-10-18 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-easydev - common utilities to ease the development of Python packages (Pyth python3-easydev - common utilities to ease the development of Python packages (Pyth Closes: 878963 Chan

Accepted fast5 0.6.3-1 (source) into unstable

2017-10-17 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore

Accepted fast5 0.6.2-7 (source all amd64) into unstable, unstable

2017-10-17 Thread Afif Elghraoui
<debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxf

Accepted bcftools 1.5-2 (source) into unstable

2017-10-11 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: bcftools - genomic variant calling and manipulation of VCF/BCF files Closes: 868958 Changes: bcftools (1.5-2) unstable; urgency=low . * Incorporate lost changes from 1.4.1-3 (Closes: #868958) * Update Standards-Version to

Accepted python-pysam 0.12.0.1+ds-2 (source) into unstable

2017-10-06 Thread Afif Elghraoui
<debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-pysam - interface for the SAM/BAM sequence alignment and mapping format ( python-pysam-tests - interface for the SAM/BAM sequence alignment and mapping format ( python3-pysam

Accepted bcftools 1.5-1 (source) into unstable

2017-10-01 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: bcftools - genomic variant calling and manipulation of VCF/BCF files Changes: bcftools (1.5-1) unstable; urgency=medium . * migrate to Unstable . bcftools (1.5-1~exp1) experimental; urgency=medium . [ Afif Elghraoui ]

Accepted python-pysam 0.12.0.1+ds-1 (source) into unstable

2017-10-01 Thread Afif Elghraoui
<debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-pysam - interface for the SAM/BAM sequence alignment and mapping format ( python-pysam-tests - interface for the SAM/BAM sequence alignment and mapping format ( p

Accepted adduser 3.116 (source) into unstable

2017-08-12 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: adduser- add and remove users and groups Closes: 708073 759740 763055 840982 845791 Changes: adduser (3.116) unstable; urgency=medium . * Advise installation of 'perl' rather than 'perl-modules' (Closes: #840982) * Improve

Accepted python-avro 1.8.2+dfsg-1 (source) into unstable

2017-08-11 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-avro - Apache Avro serialization system — Python 2 library python3-avro - Apache Avro serialization system — Python 3 library Changes: python-avro (1.8.2+dfsg-1) unstable; urgency=medium . *

Accepted gridengine 8.1.9+dfsg-5 (source) into unstable

2017-08-11 Thread Afif Elghraoui
-drmaa-dev libdrmaa1.0-ruby Architecture: source Version: 8.1.9+dfsg-5 Distribution: unstable Urgency: medium Maintainer: Debian Grid Engine Maintainers <pkg-gridengine-de...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: gridengine-client - Utilit

Accepted bcftools 1.5-1~exp1 (source) into experimental

2017-08-08 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: bcftools - genomic variant calling and manipulation of VCF/BCF files Changes: bcftools (1.5-1~exp1) experimental; urgency=medium . [ Afif Elghraoui ] * Update packaging for new build system . [ Andreas Till

Accepted canu 1.5+dfsg-1 (source) into unstable

2017-05-18 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: canu - single molecule sequence assembler for genomes Changes: canu (1.5+dfsg-1) unstable; urgency=medium . * New upstream release * d/copyright: Drop Files-Excluded entries for files removed upstream * Refresh and up

Accepted trnascan-se 1.3.1-1 (source all amd64) into unstable, unstable

2017-03-16 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: trnascan-se - detection of transfer RNA genes in genomic sequence trnascan-se-common - detection of transfer RNA genes in genomic sequence (common files Closes: 803542 Changes: trnascan

Accepted canu 1.3+dfsg-1 (source amd64) into unstable, unstable

2017-03-01 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: canu - single molecule sequence assembler for genomes Closes: 395843 Changes: canu (1.3+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #395843) Checksums-Sha1: a59f687103aa98464219e135797fc6e186e5f56c 1

Accepted python-pysam 0.10.0+ds-1 (source) into unstable

2017-01-26 Thread Afif Elghraoui
<debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-pysam - interface for the SAM/BAM sequence alignment and mapping format ( python-pysam-tests - interface for the SAM/BAM sequence alignment and mapping format ( python3-pysam

Accepted python-pbcore 1.2.11+dfsg-1 (source) into unstable

2017-01-26 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-pbcore - Python library for processing PacBio data files python-pbcore-doc - Python library for processing PacBio data files (documentation) Changes: python-pbcore (1.2.11+dfsg-1) unsta

Accepted python-cobra 0.5.9-1 (source) into unstable

2017-01-25 Thread Afif Elghraoui
ian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-cobra - constraint-based modeling of biological networks (Python 2) python-cobra-data - constraint-based modeling of biological networks (data) python3-cobra - constraint-ba

Accepted falcon 1.8.6-1 (source) into unstable

2017-01-23 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: falcon - diploid-aware genome assembly of single-molecule sequencing reads Changes: falcon (1.8.6-1) unstable; urgency=medium . * New upstream release * Remove Files-Excluded line * New dependencies: rsync, time * Up

Accepted python-avro 1.8.2~rc1+dfsg-1 (source) into experimental

2017-01-23 Thread Afif Elghraoui
med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: python-avro - Apache Avro serialization system — Python 2 library python3-avro - Apache Avro serialization system — Python 3 library Changes: python-avro (1.8.2~rc1+dfsg-1) experimental; ur

Accepted pbbam 0.7.4+ds-1 (source) into unstable

2017-01-22 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libpbbam - Pacific Biosciences binary alignment/map (BAM) library libpbbam-dev - Pacific Biosciences binary alignment/map (BAM) library (headers) pbbamtools - processing Pacific Biosciences binary a

Accepted pbgenomicconsensus 2.1.0-1 (source) into unstable

2017-01-21 Thread Afif Elghraoui
<debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: pbgenomicconsensus - Pacific Biosciences variant and consensus caller python-pbgenomicconsensus - Pacific Biosciences variant and consensus caller (Python 2) Changes: pbgenomicconsen

Accepted sprai 0.9.9.22+dfsg-1 (source) into unstable

2017-01-20 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: sprai - single-pass sequencing read accuracy improver Changes: sprai (0.9.9.22+dfsg-1) unstable; urgency=low . * Add example data * Bump copyright year * New upstream release * Update upstream contact email addre

Accepted ori 0.8.1+ds1-3 (source) into unstable

2017-01-19 Thread Afif Elghraoui
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Format: 1.8 Date: Thu, 19 Jan 2017 03:19:48 -0800 Source: ori Binary: ori Architecture: source Version: 0.8.1+ds1-3 Distribution: unstable Urgency: low Maintainer: Afif Elghraoui <a...@debian.org> Changed-By: Afif Elghraoui <a...@d

Accepted dazzdb 1.0+20161112-2 (source) into unstable

2017-01-19 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dazzdb - manage nucleotide sequencing read data Changes: dazzdb (1.0+20161112-2) unstable; urgency=medium . * compiler-flags.patch: slight corrections for DBwipe Checksums-Sha1: e02b8d43f45fa00cf2c56450ad24aabae

Accepted dazzdb 1.0+20161112-1 (source) into unstable

2017-01-18 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dazzdb - manage nucleotide sequencing read data Changes: dazzdb (1.0+20161112-1) unstable; urgency=medium . * New upstream snapshot (git e31d451) * Refresh and update patches * New build-dependency: zlib Ch

Accepted daligner 1.0+20161119-1 (source) into unstable

2017-01-18 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: daligner - local alignment discovery between long nucleotide sequencing read Changes: daligner (1.0+20161119-1) unstable; urgency=medium . * New upstream snapshot (git a9458dc) Ch

Accepted kineticstools 0.6.1+20161222-1 (source) into unstable

2017-01-15 Thread Afif Elghraoui
Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: kineticstools - detection of DNA modifications kineticstools-data - detection of DNA modifications -- data files python-kineticstools - detection of DNA modificatio

Accepted pbalign 0.3.0-1 (source) into unstable

2017-01-15 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: pbalign- map Pacific Biosciences reads to reference DNA sequences pbalign-doc - documentation for pbalign python-pbalign - map Pacific Biosciences reads to reference DNA sequences (Python2 Chang

Accepted pbsuite 15.8.24+dfsg-2 (source) into unstable

2016-12-28 Thread Afif Elghraoui
Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: pbhoney- genomic structural variation discovery pbjelly- genome assembly upgrading tool pbsuite- software for Pacific Biosciences sequencing data pyt

Accepted dazzdb 1.0+20160930-2 (source) into unstable

2016-12-27 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: dazzdb - manage nucleotide sequencing read data Closes: 849433 Changes: dazzdb (1.0+20160930-2) unstable; urgency=low . * Drop rename-simulator.patch in favor of a line in d/rules * Use LDLIBS rather than LDFLAGS

Accepted daligner 1.0+20160927-2 (source) into unstable

2016-12-27 Thread Afif Elghraoui
org> Changed-By: Afif Elghraoui <a...@debian.org> Description: daligner - local alignment discovery between long nucleotide sequencing read Closes: 849431 Changes: daligner (1.0+20160927-2) unstable; urgency=low . * Use LDLIBS rather than LDFLAGS. Thanks to Logan Rosen (Clo

Accepted blasr 5.3+0-1 (source) into unstable

2016-12-23 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: blasr - mapping single-molecule sequencing reads Changes: blasr (5.3+0-1) unstable; urgency=medium . * Imported Upstream version 5.3+0 (corresponds to smrtanalysis-4.0.0 tag) * Refresh patches Ch

Accepted pbcopper 0.0.1+20161202-2 (source) into unstable

2016-12-22 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libpbcopper-dev - data structures, algorithms, and utilities for C++ applications - Changes: pbcopper (0.0.1+20161202-2) unstable; urgency=medium . * build with -fPIC Ch

Accepted pbcopper 0.0.1+20161202-1 (source amd64) into unstable, unstable

2016-12-21 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libpbcopper-dev - data structures, algorithms, and utilities for C++ applications - Closes: 848122 Changes: pbcopper (0.0.1+20161202-1) unstable; urgency=medium . * Initial release (Closes: #848122) Ch

Accepted pbdagcon 0.3+20161121+ds-1 (source) into unstable

2016-12-21 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: pbdagcon - sequence consensus using directed acyclic graphs Closes: 848755 Changes: pbdagcon (0.3+20161121+ds-1) unstable; urgency=medium . * New upstream revision (upstream git 87f393f) * Include repository'

Accepted blasr 5.3-2 (source) into unstable

2016-12-20 Thread Afif Elghraoui
hanged-By: Afif Elghraoui <a...@debian.org> Description: blasr - mapping single-molecule sequencing reads Closes: 848541 848751 Changes: blasr (5.3-2) unstable; urgency=medium . * Use pbseqlib metapackage rather than depending on individual libraries * Build with pbbam (Closes: #848

Accepted pbseqlib 0~20161219-1 (source) into unstable

2016-12-20 Thread Afif Elghraoui
Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libblasr - tools for aligning PacBio reads to target sequences libblasr-dev - tools for aligning PacBio reads to target sequences

Accepted pbseqlib 0~20160705-2 (source) into unstable

2016-12-17 Thread Afif Elghraoui
Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: libblasr - tools for aligning PacBio reads to target sequences libblasr-dev - tools for aligning PacBio reads to target sequences

Accepted poretools 0.6.0+dfsg-2 (source all) into unstable, unstable

2016-12-17 Thread Afif Elghraoui
kag...@lists.alioth.debian.org> Changed-By: Afif Elghraoui <a...@debian.org> Description: poretools - toolkit for nanopore nucleotide sequencing data poretools-data - toolkit for nanopore nucleotide sequencing data -- sample dataset Changes: poretools (0.6.0+dfsg-2) unstable; urgency=low

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