Author: plessy Date: 2011-01-30 01:11:15 +0000 (Sun, 30 Jan 2011) New Revision: 5800
Added: trunk/packages/blat/trunk/debian/upstream-metadata.yaml Removed: trunk/packages/blat/trunk/debian/README.Debian trunk/packages/blat/trunk/debian/reference Modified: trunk/packages/blat/trunk/debian/changelog trunk/packages/blat/trunk/debian/control trunk/packages/blat/trunk/debian/copyright Log: Found a slightly more recent version on my hard drive?\226?\128?\166 Deleted: trunk/packages/blat/trunk/debian/README.Debian =================================================================== --- trunk/packages/blat/trunk/debian/README.Debian 2011-01-30 01:07:05 UTC (rev 5799) +++ trunk/packages/blat/trunk/debian/README.Debian 2011-01-30 01:11:15 UTC (rev 5800) @@ -1,6 +0,0 @@ -blat for Debian ---------------- - -<possible notes regarding this package - if none, delete this file> - - -- Charles Plessy <[email protected]> Thu, 09 Apr 2009 17:20:01 +0900 Modified: trunk/packages/blat/trunk/debian/changelog =================================================================== --- trunk/packages/blat/trunk/debian/changelog 2011-01-30 01:07:05 UTC (rev 5799) +++ trunk/packages/blat/trunk/debian/changelog 2011-01-30 01:11:15 UTC (rev 5800) @@ -1,4 +1,4 @@ -blat (34-1) unstable; urgency=low +blat (34-1) UNRELEASED; urgency=low * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP> Modified: trunk/packages/blat/trunk/debian/control =================================================================== --- trunk/packages/blat/trunk/debian/control 2011-01-30 01:07:05 UTC (rev 5799) +++ trunk/packages/blat/trunk/debian/control 2011-01-30 01:11:15 UTC (rev 5800) @@ -1,13 +1,34 @@ Source: blat Section: non-free/science Priority: optional -Maintainer: Charles Plessy <[email protected]> +Maintainer: Debian Med Packaging Team <[email protected]> +DM-Upload-Allowed: yes +Uploaders: Charles Plessy <[email protected]> Build-Depends: cdbs, debhelper (>= 7) Standards-Version: 3.8.1 -Homepage: <insert the upstream URL, if relevant> +Homepage: http://www.kentinformatics.com/products.html Package: blat Architecture: i386 amd64 Depends: ${shlibs:Depends}, ${misc:Depends} -Description: standalone BLAT fast sequence search command line tool - +Description: The BLAST-Like Alignment Tool + BLAT on DNA is designed to quickly find sequences of 95% and greater + similarity of length 25 bases or more. It may miss more divergent or shorter + sequence alignments. It will find perfect sequence matches of 25 bases, and + sometimes find them down to 20 bases. BLAT on proteins finds sequences of 80% + and greater similarity of length 20 amino acids or more. In practice DNA BLAT + works well on primates, and protein blat on land vertebrates. + . + BLAT is not BLAST. DNA BLAT works by keeping an index of the entire genome in + memory. The index consists of all non-overlapping 11-mers except for those + heavily involved in repeats. The index takes up a bit less than a gigabyte of + RAM. The genome itself is not kept in memory, allowing BLAT to deliver high + performance on a reasonably priced Linux box. The index is used to find areas + of probable homology, which are then loaded into memory for a detailed + alignment. Protein BLAT works in a similar manner, except with 4-mers rather + than 11-mers. The protein index takes a little more than 2 gigabytes. + . + BLAT was written by Jim Kent. Like most of Jim's software, interactive use on + this web server is free to all. Sources and executables to run batch jobs on + your own server are available free for academic, personal, and non-profit + purposes. Non-exclusive commercial licenses are also available. Modified: trunk/packages/blat/trunk/debian/copyright =================================================================== --- trunk/packages/blat/trunk/debian/copyright 2011-01-30 01:07:05 UTC (rev 5799) +++ trunk/packages/blat/trunk/debian/copyright 2011-01-30 01:11:15 UTC (rev 5800) @@ -1,8 +1,7 @@ -Name: BLAT -Contact: Jim Kent <[email protected]> -Source: +Format: DEP-5 +Source: http://users.soe.ucsc.edu/~kent/src/blatSrc34.zip -License: +License: BLAT This archive contains the entire source tree for BLAT and associated utilities. All files are copyrighted, but license is hereby granted for personal, academic, and non-profit use. @@ -12,5 +11,25 @@ Files: debian/* Copyright: 2009, Charles Plessy <[email protected]> -License: PD - Please treat the packaging work as if it were public domain. +License: BOLA-1.1 + BOLA - Buena Onda License Agreement (v1.1) + ------------------------------------------ + . + This work is provided 'as-is', without any express or implied warranty. In no + event will the authors be held liable for any damages arising from the use of + this work. + . + To all effects and purposes, this work is to be considered Public Domain. + . + . + However, if you want to be "buena onda", you should: + . + 1. Not take credit for it, and give proper recognition to the authors. + 2. Share your modifications, so everybody benefits from them. + 3. Do something nice for the authors. + 4. Help someone who needs it: sign up for some volunteer work or help your + neighbour paint the house. + 5. Don't waste. Anything, but specially energy that comes from natural + non-renewable resources. Extra points if you discover or invent something + to replace them. + 6. Be tolerant. Everything that's good in nature comes from cooperation. Deleted: trunk/packages/blat/trunk/debian/reference =================================================================== --- trunk/packages/blat/trunk/debian/reference 2011-01-30 01:07:05 UTC (rev 5799) +++ trunk/packages/blat/trunk/debian/reference 2011-01-30 01:11:15 UTC (rev 5800) @@ -1,12 +0,0 @@ -@article{W. JamesKent04012002, -author = {Kent, W. James}, -title={{BLAT—The BLAST-Like Alignment Tool}}, -journal = {Genome Research}, -volume = {12}, -number = {4}, -pages = {656-664}, -doi = {10.1101/gr.229202}, -year = {2002}, -URL = {http://genome.cshlp.org/content/12/4/656.abstract}, -eprint = {http://genome.cshlp.org/content/12/4/656.full.pdf+html} -} Added: trunk/packages/blat/trunk/debian/upstream-metadata.yaml =================================================================== --- trunk/packages/blat/trunk/debian/upstream-metadata.yaml (rev 0) +++ trunk/packages/blat/trunk/debian/upstream-metadata.yaml 2011-01-30 01:11:15 UTC (rev 5800) @@ -0,0 +1,12 @@ +NAME: BLAT +Reference: + author = Kent, W. James + title = BLAT—The BLAST-Like Alignment Tool + journal = Genome Research + volume = 12 + number = 4 + pages = 656-664 + doi = 10.1101/gr.229202 + year = 2002 + URL = http://genome.cshlp.org/content/12/4/656.abstract + eprint = http://genome.cshlp.org/content/12/4/656.full.pdf+html _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
