Your message dated Thu, 22 May 2014 11:00:11 +0000 with message-id <e1wnqjl-0006ig...@franck.debian.org> and subject line Bug#710324: fixed in staden 2.0.0+b10-1 has caused the Debian Bug report #710324, regarding ITP: staden -- set of DNA sequence assembly, editing and analysis tools to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 710324: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=710324 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: wnpp Severity: wishlist Owner: Jonas Smedegaard <d...@jones.dk> * Package name : staden Version : 2.0.0b9 Upstream Author : Medical Research Council, Laboratory of Molecular Biology * URL : http://staden.sourceforge.net/ * License : unknown (need to be resolved, obviously, before releasing) Programming Lang: C, C++, Tcl Description : set of DNA sequence assembly, editing and analysis tools This is the Staden package, a collection of sequence handling and analysis software. . Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons, assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy. . Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or analysis, and automates these processes. . Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files. . Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help finish the project. . Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate the mutations found ready for viewing in gap4. . Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid against nucleic acid, protein against protein, and protein against nucleic acid.
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--- Begin Message ---Source: staden Source-Version: 2.0.0+b10-1 We believe that the bug you reported is fixed in the latest version of staden, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 710...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated staden package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Mon, 21 Apr 2014 22:34:28 +0200 Source: staden Binary: staden staden-common Architecture: source amd64 all Version: 2.0.0+b10-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: staden - DNA sequence assembly (Gap4/Gap5), editing and analysis tools staden-common - Architecture independent files for Staden Closes: 710324 Changes: staden (2.0.0+b10-1) unstable; urgency=low . [ Tim Booth ] * Initial release to Debian (Closes: #710324) . * Fix dependency for Debian after realising io-lib was already packaged as libstaden-read . [ Andreas Tille ] * Port some changes from other attempt to package staden by Jonas Smedegaard * Fix several lintian issues * fix watch file * wrapper script for staden to provide access to all binaries, main binaries available via additional symlink Checksums-Sha1: 228dfc934b5d46e63ee677c6934cb66f89440dc8 2215 staden_2.0.0+b10-1.dsc 82543c888f71249fbff3ad8de220ce9fb113915c 4616845 staden_2.0.0+b10.orig.tar.gz d3bf4a22b6c00066e9836abae8ee94d35639c26d 14112 staden_2.0.0+b10-1.debian.tar.xz 2b995904611ea6b2082096f2384d70e5e88f8c0f 1536924 staden_2.0.0+b10-1_amd64.deb da2cf3364658f416a5c1dcba5e608d6d4b1fae22 1941102 staden-common_2.0.0+b10-1_all.deb Checksums-Sha256: 7275db262edac11471ad93a7494052e31a74fa473def4dc933adbcdb84f24836 2215 staden_2.0.0+b10-1.dsc 099efd84a208ec9efa3669803c0ca6f09960d760886fa3990dfa5cf9d0c112fb 4616845 staden_2.0.0+b10.orig.tar.gz ed9305c6326da41dd64f7723eb566eda952b83745166ac8f1d9a2c55060f0ed2 14112 staden_2.0.0+b10-1.debian.tar.xz 7e6308bff8d65607c4f9727b2d4f8f8d7d8a3c465ed160f8668714d7d919b85c 1536924 staden_2.0.0+b10-1_amd64.deb 3f7f994ad5f3ba9fa10e7dfb3361e8f92374bde57d118a23492d409d0c2b6142 1941102 staden-common_2.0.0+b10-1_all.deb Files: 6fc89f74cdd50764af9c8871bf3c1ed5 1536924 science optional staden_2.0.0+b10-1_amd64.deb 74d8610d2cc38d91a54bed8a670b0d8b 1941102 science optional staden-common_2.0.0+b10-1_all.deb 85ccb89f63fbe5a1406edf1eb88357dd 2215 science optional staden_2.0.0+b10-1.dsc 81ad0b840253774e41d3089fca7af688 4616845 science optional staden_2.0.0+b10.orig.tar.gz 2a9cab52573e6831acd09d1454146fa4 14112 science optional staden_2.0.0+b10-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iQIcBAEBCAAGBQJTfKkQAAoJEFeKBJTRxkbRxnQP/jgg63/rRhJDvkTLzDCCEBTe z/xNivHqV7/KX3j5et3eOi4VymaOFdGH0Npff5EGvMeubSJJMKTYdFX4cO5MY1vB KgyNNHMckK/NuytzbihmxLvw+NFnb1GNXk5gBOkveytr6Rcd01TKNN1KMUn3cx3P muQ2uiwTtQW7/f/0PIyJq0T0nCHRiV8LBPET5ODSWSQhR3BhyMV99BN/vJSli1sw W95Evcs9fvEyTzQzUizsEEC7hGHOq4cj8cTYvoBBa8xHTLrH0K58GACmafRQ4tXs t+UBZeTRTj4YMe88Mfr+MLNe43xICjvfBDBJlxiIIWLpAifWG5HNI1hBHNi6LjKj UB2Q3eOobdSpVKbST+ViMNxex4dVHeCl30MW8BRjurO7/RgVP26rFS1zAltnRujC u/9pTzEcaYuT7nm/rKiYC0OHFZq5pNhvorK5TaGL/CmYYL2E4oCVs8ICROI5foM/ /fal4Beux1TG4hZiSCcXJajxg7vOJyPJYgzx4EkNuhhNY1WwUI+9R4FaAxplcNfo MM6PFidEVJh5m6R7Y8V7K2sFEE3ZSo92fz94FEyCO13O/ERdi4+6DIxsYoCpS+iu BqAWwpYc8yx99mDCFkL3olQynO5yEyU1U6Bs8gqB9kdM6bm+xrnk5N37dvD4ZBBX whWaJIQtmJkZ5svrKiTY =M0+y -----END PGP SIGNATURE-----
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