kpriv/pkgsrc
1
0
Fork 0
Code Issues Pull requests Projects Releases Packages Wiki Activity
pkgsrc/biology/glimmer/distinfo

9 lines
508 B
Text
Raw Normal View History

Add SHA512 digests for distfiles for biology category. Existing SHA1 digests verified, all found to be the same on the machine holding the existing distfiles (morden). Existing SHA1 digests retained for now as an audit trail.
2015-11-02 19:42:20 +01:00
$NetBSD: distinfo,v 1.5 2015/11/02 18:42:21 agc Exp $
Initial import of glimmer, one of the many packages provided by brook at biology dot nmsu dot edu and his team at NMSU. Glimmer (Gene Locator and Interpolated Markov Modeler) is a system for finding genes in microbial DNA, especially the genomes of bacteria and archaea. Glimmer uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA. The IMM approach uses a combination of Markov models from 1st through 8th-order, weighting each model according to its predictive power.
2003-09-30 04:11:06 +02:00
Update to glimmer-2.13, thanks to cngo@nmsu.edu. CHANGELOG, 12 October 2003 add -X option to glimmer2, to allow orfs extending off ends of sequence to be scored. Also fix bug affecting -p and -o options when user chose zero overlap.
2004-08-19 18:47:01 +02:00
SHA1 (glimmer213.tar.gz) = 772752c3c1543066e4c156e5ec0a2e4f0a24c688
Add RMD160 digests in addition to the SHA1 ones.
2005-02-22 22:28:55 +01:00
RMD160 (glimmer213.tar.gz) = 1667d04bc66f373d5df395e16b79b07814d3ea2c
Add SHA512 digests for distfiles for biology category. Existing SHA1 digests verified, all found to be the same on the machine holding the existing distfiles (morden). Existing SHA1 digests retained for now as an audit trail.
2015-11-02 19:42:20 +01:00
SHA512 (glimmer213.tar.gz) = 3289e65f93c6fcf5f295b2e22258c424d6325745da13863d89e177c0d25c6927d2ff45b0221cb208f8ad0667ff0ad85909a50c14591bd7f93c74f390c7bedc57
Update to glimmer-2.13, thanks to cngo@nmsu.edu. CHANGELOG, 12 October 2003 add -X option to glimmer2, to allow orfs extending off ends of sequence to be scored. Also fix bug affecting -p and -o options when user chose zero overlap.
2004-08-19 18:47:01 +02:00
Size (glimmer213.tar.gz) = 79858 bytes
Initial import of glimmer, one of the many packages provided by brook at biology dot nmsu dot edu and his team at NMSU. Glimmer (Gene Locator and Interpolated Markov Modeler) is a system for finding genes in microbial DNA, especially the genomes of bacteria and archaea. Glimmer uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA. The IMM approach uses a combination of Markov models from 1st through 8th-order, weighting each model according to its predictive power.
2003-09-30 04:11:06 +02:00
SHA1 (patch-aa) = ceb45f887c32e91bd96b9d2c8dae39c9cc6fc658
Apply patches from Tyler Retzlaff in PR pkg/23083 to make this behave with gcc3. While here, update to version 2.12 (previous version was erraneously named 2.1, when it should have been 2.10) which is the only distfile available on the ftp site. Changelog seems to say: - Fix bug on long-orfs.cc to avoid occasional array out-of-bounds error (detected on Mac OS X).
2003-10-07 20:20:15 +02:00
SHA1 (patch-ab) = e2afaa9ff8e0d4a2647a77bbf7e1ba4012d53061
Reference in a new issue Copy permalink