velvet1.2.02 (1.2.02-1) unstable; urgency=low * New upstream release. * Branched from the github repo, and all additional files in the 1.2.02 release tarball are part of this package. -- Scott Smith Sat, 28 Jan 2012 17:37:06 +0900 velvet0.7.56 (0.7.56-1) unstable; urgency=low * New upstream version. * Repackaged the upstream directory to remove the convenience copy of the zlib. Documented this in ‘debian/README.source’. Closes: #561433. * Updated debian/copyright. * Added ‘include_debians_zlib.patch’ to enforce the use of /usr/include/zlib.h. This patch is applied using CDBS, see ‘debian/rules’ and ‘debian/README.source’. * Renamed ‘debian/reference’ ‘debian/upstream-metadata.yaml’ and centralised upstream-specific information there. -- Charles Plessy Mon, 25 Jan 2010 13:03:06 +0900 velvet0.7.55-1 (0.7.55-1) unstable; urgency=low * New upstream version -- Andreas Tille Fri, 25 Sep 2009 14:52:41 +0200 velvet0.7.53-1 (0.7.53-1) unstable; urgency=low * New upstream release: - Ignored reads in Pebble corrected - Added automatic measure of median coverage and median insert length - Updated manual to cover the above -- Charles Plessy Fri, 04 Sep 2009 13:42:22 +0900 velvet0.7.52-1 (0.7.52-1) unstable; urgency=low * New upstream release: V 0.7.51 - Small parsing bug - Correction to the observed-insert-length script - Verified strncpy calls - NCBI friendly 10bp N-gaps V 0.7.52 - Crashing bug when parsing fa.gz files - Crashing bug with tiny Graph files - Bug when loading FASTA files with short lines - Corrected snp_view.pl script to write reverse strand reads in snp_view_reads file - Corrected snp_view.pl script to behave better near the edges of contigs - Updated observed_insert_length to compute the standard deviation of the set - Corrected observed_insert_length script so that it does not crash on empty libraries - Crashing bug when providing an odd number of paired reads - Mapping bug of reads during tour bus correction * Replaced the UNRELEASED tag by ‘unstable’ in debian/changelog as 0.7.50-1 was really uploaded and accepted by the archive. -- Charles Plessy Thu, 03 Sep 2009 20:00:54 +0900 velvet0.7.50-1 (0.7.50-1) unstable; urgency=low * New upstream release: V 0.7.49 - Added the optional output of unused reads - Added David Studholme's FastA -> AGP script V 0.7.50 - Added the extractContigReads script - Updated the FastA -> AGP script - Added the observed-insert-length script - Small parsing bug in simplified read import * Incremented Standards-Version in debian/control to reflect conformance with Policy 3.8.3 (no changes needed). -- Charles Plessy Wed, 19 Aug 2009 21:58:49 +0900 velvet0.7.48-1 (0.7.48-1) unstable; urgency=low * New upstream release: - Accelerated concatenation (pre-graph and graph) - Unlimited contig size - Bug in parsing FASTA files with very long lines - Parsing bug in snp_view.pl script -- Charles Plessy Tue, 11 Aug 2009 19:54:03 +0900 velvet0.7.47-1 (0.7.47-1) unstable; urgency=low * New upstream release correcting bugs and enhancing documentation. * Multi-Arch support (‘foreign’) in debian/control. * Corrected debian/install to avoid ugly ‘contrib/contrib’ location. -- Charles Plessy Thu, 30 Jul 2009 13:43:13 +0900 velvet0.7.44-1 (0.7.44-1) unstable; urgency=low * New upstream release. * Added bibliographic information in BibTeX format in debian/references. * debian/rules: touch zlib to avoid third-party zlib to be built. * Removed ‘debian/patches/20_external_zlib.patch’. Passing apropriate variables in debian/rules is enough to build dynamically on Debian's zlib. * Removed the quilt patch system (debian/control, debian/README.source debian/rules). * Incremented Standards-Version in debian/control to reflect conformance with Policy 3.8.2 (no changes needed). * Corrected the installation of files that were moved from the ‘third-party’ directory to the ‘contrib’ directory. * Experimentation on debian/copyright. -- Charles Plessy Sun, 12 Jul 2009 00:24:56 +0900 velvet0.7.37-1 (0.7.37-1) unstable; urgency=low * New upstream release. - Small formatting change to error messages - K > 31 now possible - --help option corrected for velvetg - Acceleration of k-mer operations (comparable to 64bit int performance) - Fixed variable lengths - Reordered struct declaration for more efficent memory alignment * debian/rules: - Restored manpage generation for velvetg*. - Added forgotten CFLAGS for the colorspace building. -- Charles Plessy Sat, 27 Jun 2009 12:27:27 +0900 velvet0.7.34-1 (0.7.34-1) unstable; urgency=low * New upstream release correcting multiple bugs, changing the stats output, allowing optional scaffolding and multiple rounds of Pebble. * Added the programs velveth_de and velvetg_de to the package in /usr/bin, and the scripts shuffleSequences_fasta.pl and shuffleSequences_fastq.pl in /usr/share/velvet (debian/rules, debian/install). * Refreshed debian/copyright. * Temporarly disabled the manpage generation of velvetg* because the --help option is not available (debian/rules). -- Charles Plessy Tue, 09 Jun 2009 21:28:03 +0900 velvet0.7.31-1 (0.7.31-1) unstable; urgency=low * New upstream version * Standards-Version: 3.8.1 (no changes needed) * Create manpages using help2man * Move third-party/layout and third-party/afg_handling to examples because these scripts are actually not to run velvet but for the convenience of users - in /urs/share/velvet these scripts seem to be perfectly hidden and in /usr/share/doc/velvet might create users attendance * Added missing quilt entry in debian/rules -- Andreas Tille Fri, 27 Mar 2009 13:23:32 +0100 velvet0.7.24-1 (0.7.24-1) unstable; urgency=low * Initial release (Closes: #487026) -- Charles Plessy Wed, 09 Jul 2008 14:06:55 +0900