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Revision 1.23 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 14 22:44:07 2011 UTC (8 years, 9 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_02212011, mgrast_dev_02222011, mgrast_dev_03252011, mgrast_dev_03312011, mgrast_dev_04012011, mgrast_dev_04052011, mgrast_dev_04082011, mgrast_dev_04132011, mgrast_dev_05262011, mgrast_dev_06072011, mgrast_dev_08022011, mgrast_dev_08112011, mgrast_dev_10262011, mgrast_dev_12152011, mgrast_release_3_0, mgrast_release_3_0_1, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_4, mgrast_release_3_1_0, mgrast_release_3_1_1, mgrast_release_3_1_2, mgrast_version_3_2, myrast_33, myrast_rel40, rast_rel_2011_0928
Changes since 1.22: +2 -0 lines
Diff to previous 1.22
Update to figfam build code

Revision 1.22 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Nov 30 00:16:46 2010 UTC (9 years ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_1206, rast_rel_2011_0119
Changes since 1.21: +1 -1 lines
Diff to previous 1.21
fix memcache stuff

Revision 1.21 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 29 22:25:34 2010 UTC (9 years ago) by olson
Branch: MAIN
Changes since 1.20: +29 -4 lines
Diff to previous 1.20
updates

Revision 1.20 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 22 20:06:09 2010 UTC (9 years ago) by olson
Branch: MAIN
Changes since 1.19: +14 -7 lines
Diff to previous 1.19
More memcache fixes.

Revision 1.19 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 22 17:58:30 2010 UTC (9 years ago) by olson
Branch: MAIN
Changes since 1.18: +11 -1 lines
Diff to previous 1.18
tweaks.

Revision 1.18 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 22 17:41:30 2010 UTC (9 years ago) by olson
Branch: MAIN
Changes since 1.17: +35 -6 lines
Diff to previous 1.17
Big round of figfam update changes

Revision 1.17 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Oct 29 17:10:34 2010 UTC (9 years, 1 month ago) by olson
Branch: MAIN
Changes since 1.16: +2 -2 lines
Diff to previous 1.16
Update to FF processing

Revision 1.16 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Sep 14 19:10:59 2010 UTC (9 years, 2 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_0928
Changes since 1.15: +1 -0 lines
Diff to previous 1.15
Precompute fasta lengths for the non-FF nr.

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 12 18:41:35 2010 UTC (9 years, 4 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_0827
Changes since 1.14: +2 -0 lines
Diff to previous 1.14
Add figfam coupling computation

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jul 13 16:52:41 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.13: +5 -0 lines
Diff to previous 1.13
Hm. Use IPC::Open3 instead of IPC::Run in get_oligos, since we somehow lost data with IPC::Run. Bizarre.

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jul 13 12:08:39 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.12: +2 -2 lines
Diff to previous 1.12
bah, fix bad varname

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jul 13 12:06:06 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.11: +53 -26 lines
Diff to previous 1.11
More fixes; only generate 8mers for OTUs; add skipotu option.

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 12 21:06:53 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.10: +3 -1 lines
Diff to previous 1.10
Sort get_oligos output in 10M oligo chunks with an explicit merge when done, so we
can better overlap the actual get_oligos computation with the sorts.

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 12 20:04:03 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.9: +2 -2 lines
Diff to previous 1.9
fixes

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 12 19:39:05 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.8: +4 -2 lines
Diff to previous 1.8
wup, uncomment some code

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 12 19:30:27 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.7: +89 -13 lines
Diff to previous 1.7
Bunch of figfam generation optimizations.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jun 23 21:16:51 2010 UTC (9 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.6: +44 -5 lines
Diff to previous 1.6
Rollup of figfam update fixes

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jun 10 19:31:05 2010 UTC (9 years, 6 months ago) by overbeek
Branch: MAIN
Changes since 1.5: +2 -0 lines
Diff to previous 1.5
build Blast directory for FRs

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Apr 1 19:28:40 2010 UTC (9 years, 8 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_0526
Changes since 1.4: +4 -1 lines
Diff to previous 1.4
figfam build updates

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jan 14 16:48:56 2010 UTC (9 years, 10 months ago) by overbeek
Branch: MAIN
CVS Tags: rast_rel_2010_0118
Changes since 1.3: +2 -0 lines
Diff to previous 1.3
add construction of nonprok_ff

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 16 22:00:34 2009 UTC (10 years ago) by olson
Branch: MAIN
Changes since 1.2: +4 -2 lines
Diff to previous 1.2
add large sort buffer options

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 16 21:56:22 2009 UTC (10 years ago) by olson
Branch: MAIN
Changes since 1.1: +4 -1 lines
Diff to previous 1.1
forgot the loop

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 16 21:52:21 2009 UTC (10 years ago) by overbeek
Branch: MAIN
new scripts for updating FIGfams and Kmer tables

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