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Revision 1.25 - (view) (annotate) - [select for diffs]
Tue Feb 13 16:21:44 2007 UTC (9 years, 7 months ago) by confused
Branch: MAIN
CVS Tags: HEAD
Changes since 1.24: +868 -271 lines
Diff to previous 1.24
New version of msatfinder, new engines

Revision 1.24 - (view) (annotate) - [select for diffs]
Wed Aug 9 13:50:14 2006 UTC (10 years, 1 month ago) by knirirr
Branch: MAIN
Changes since 1.23: +7 -3 lines
Diff to previous 1.23
Modification to findmotifs_regex to avoid finding some things not looked for.

Revision 1.23 - (view) (annotate) - [select for diffs]
Tue Jul 18 14:32:01 2006 UTC (10 years, 2 months ago) by knirirr
Branch: MAIN
Changes since 1.22: +2 -1 lines
Diff to previous 1.22
Added new ebuild, and reference to same in main script.

Revision 1.22 - (view) (annotate) - [select for diffs]
Tue Apr 4 08:44:44 2006 UTC (10 years, 5 months ago) by knirirr
Branch: MAIN
Changes since 1.21: +32 -13 lines
Diff to previous 1.21
Fixed overlap bug in fasta file creation routine.

Revision 1.21 - (view) (annotate) - [select for diffs]
Fri Feb 10 15:49:43 2006 UTC (10 years, 7 months ago) by confused
Branch: MAIN
Changes since 1.20: +35 -2 lines
Diff to previous 1.20
Provided error-checking for duplicated sequence names

Revision 1.20 - (view) (annotate) - [select for diffs]
Tue Nov 15 12:38:34 2005 UTC (10 years, 10 months ago) by knirirr
Branch: MAIN
Changes since 1.19: +23 -27 lines
Diff to previous 1.19
Fixed bug where regex engine detected small monos as dis, and let them slip under the threshold.

Revision 1.19 - (view) (annotate) - [select for diffs]
Fri Oct 21 08:23:07 2005 UTC (10 years, 11 months ago) by knirirr
Branch: MAIN
Changes since 1.18: +1 -1 lines
Diff to previous 1.18
Commented out mistakenly duplicated line.

Revision 1.18 - (view) (annotate) - [select for diffs]
Fri Sep 16 09:22:51 2005 UTC (11 years ago) by knirirr
Branch: MAIN
Changes since 1.17: +10 -2 lines
Diff to previous 1.17
More corrections to dubious FASTA file names.

Revision 1.17 - (view) (annotate) - [select for diffs]
Tue Aug 23 09:28:41 2005 UTC (11 years, 1 month ago) by knirirr
Branch: MAIN
Changes since 1.16: +31 -13 lines
Diff to previous 1.16
Fixes to count files.

Revision 1.16 - (view) (annotate) - [select for diffs]
Fri Aug 12 08:33:05 2005 UTC (11 years, 1 month ago) by knirirr
Branch: MAIN
Changes since 1.15: +17 -7 lines
Diff to previous 1.15
Corrected fasta file name bug.

Revision 1.15 - (view) (annotate) - [select for diffs]
Mon Aug 8 09:06:19 2005 UTC (11 years, 1 month ago) by knirirr
Branch: MAIN
Changes since 1.14: +22 -14 lines
Diff to previous 1.14
Slight change to count file output.

Revision 1.14 - (view) (annotate) - [select for diffs]
Mon Jul 11 11:19:54 2005 UTC (11 years, 2 months ago) by knirirr
Branch: MAIN
Changes since 1.13: +2 -1 lines
Diff to previous 1.13
Small typo in $totint;

Revision 1.13 - (view) (annotate) - [select for diffs]
Mon Jul 11 10:54:53 2005 UTC (11 years, 2 months ago) by knirirr
Branch: MAIN
Changes since 1.12: +290 -51 lines
Diff to previous 1.12
Added IRD routine to allow interrupt finding, also added a summary file
for primer information.

Revision 1.12 - (view) (annotate) - [select for diffs]
Thu Jul 7 10:14:20 2005 UTC (11 years, 2 months ago) by knirirr
Branch: MAIN
Changes since 1.11: +1 -0 lines
Diff to previous 1.11
Added ird.

Revision 1.11 - (view) (annotate) - [select for diffs]
Fri Jun 24 08:58:06 2005 UTC (11 years, 3 months ago) by knirirr
Branch: MAIN
Changes since 1.10: +4 -3 lines
Diff to previous 1.10
Corrected bug in count files that would not display lines for low
thresholds.

Revision 1.10 - (view) (annotate) - [select for diffs]
Mon Apr 25 16:35:38 2005 UTC (11 years, 5 months ago) by knirirr
Branch: MAIN
Changes since 1.9: +16 -6 lines
Diff to previous 1.9
Corrected GPL text in main code.

Revision 1.9 - (view) (annotate) - [select for diffs]
Thu Apr 21 12:39:48 2005 UTC (11 years, 5 months ago) by knirirr
Branch: MAIN
Changes since 1.8: +1 -1 lines
Diff to previous 1.8
Fixed commented unlink of temp primer files.

Revision 1.8 - (view) (annotate) - [select for diffs]
Thu Apr 21 09:12:48 2005 UTC (11 years, 5 months ago) by knirirr
Branch: MAIN
Changes since 1.7: +4 -4 lines
Diff to previous 1.7
Altered one file header (motif_units).

Revision 1.7 - (view) (annotate) - [select for diffs]
Wed Apr 20 10:42:35 2005 UTC (11 years, 5 months ago) by knirirr
Branch: MAIN
Changes since 1.6: +15 -3 lines
Diff to previous 1.6
Transferred newest code here from local cvs. Updated msatfinder to correct fileheaders.

Revision 1.6 - (view) (annotate) - [select for diffs]
Wed Mar 16 16:38:29 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Changes since 1.5: +24 -23 lines
Diff to previous 1.5
More whirleys to twirl away whilst bioperl takes ages to parse features, &c.

Revision 1.5 - (view) (annotate) - [select for diffs]
Wed Mar 16 10:13:01 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Changes since 1.4: +4 -4 lines
Diff to previous 1.4
Fixed typos in last commit, whirley added.

Revision 1.4 - (view) (annotate) - [select for diffs]
Wed Mar 16 09:28:35 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Changes since 1.3: +65 -81 lines
Diff to previous 1.3
Improved regex engine, changed engine priority for greater speed.

Revision 1.3 - (view) (annotate) - [select for diffs]
Fri Mar 11 11:08:26 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Changes since 1.2: +52 -8 lines
Diff to previous 1.2
Added new spinner.

Revision 1.2 - (view) (annotate) - [select for diffs]
Tue Mar 8 16:12:11 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Changes since 1.1: +2 -9 lines
Diff to previous 1.1
Fixed bug in reading Genbank files.

Revision 1.1.1.1 - (view) (annotate) - [select for diffs] (vendor branch)
Mon Mar 7 15:34:44 2005 UTC (11 years, 6 months ago) by knirirr
CVS Tags: HEAD
Changes since 1.1: +0 -0 lines
Diff to previous 1.1 , to next main 1.25
First import

Revision 1.1 - (view) (annotate) - [select for diffs]
Mon Mar 7 15:34:44 2005 UTC (11 years, 6 months ago) by knirirr
Branch: MAIN
Initial revision

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