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Revision 1.51 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 1 17:15:51 2013 UTC (6 years, 3 months ago) by overbeek
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CVS Tags: HEAD, rast_rel_2014_0729, rast_rel_2014_0912
Changes since 1.50: +1 -1 lines
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readdble.tree is in Analysis

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Wed Jul 31 18:21:13 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.49: +1 -1 lines
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minor addition of ;

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Wed Jul 17 18:29:00 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.48: +1 -2 lines
Diff to previous 1.48
bad stuff

Revision 1.48 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 17 16:44:47 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.47: +2 -0 lines
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make Analysis directory

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Wed Jul 17 16:26:37 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.46: +2 -2 lines
Diff to previous 1.46
rerooting was fixed

Revision 1.46 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 17 16:08:23 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.45: +20 -0 lines
Diff to previous 1.45
added reaction equations

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Wed Jul 17 15:02:12 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.44: +24 -6 lines
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tree stuff

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Tue Jul 16 20:38:31 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.43: +16 -18 lines
Diff to previous 1.43
rebuild ssets

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Tue Jul 16 20:20:12 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.42: +1 -0 lines
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stuff

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Tue Jul 16 19:15:34 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.41: +23 -10 lines
Diff to previous 1.41
fixes for Janaka

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Mon Jul 15 14:49:51 2013 UTC (6 years, 3 months ago) by overbeek
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Changes since 1.40: +36 -1 lines
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handle janaka adds

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Fri Jul 12 18:01:34 2013 UTC (6 years, 4 months ago) by overbeek
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Changes since 1.39: +1 -1 lines
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no sets yet

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Mon Jun 3 20:20:05 2013 UTC (6 years, 5 months ago) by overbeek
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Changes since 1.38: +2 -1 lines
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add Jose stuff

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Fri May 31 15:49:48 2013 UTC (6 years, 5 months ago) by overbeek
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Changes since 1.37: +1 -1 lines
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detach Gapfilling

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Wed May 29 17:18:43 2013 UTC (6 years, 5 months ago) by disz
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Changes since 1.36: +1 -2 lines
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Added Janaka modelCompare for reactions

Revision 1.36 - (view) (download) (as text) (annotate) - [select for diffs]
Sat May 18 17:52:15 2013 UTC (6 years, 5 months ago) by overbeek
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Changes since 1.35: +2 -2 lines
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handle anno.seed

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Thu May 9 14:52:52 2013 UTC (6 years, 6 months ago) by overbeek
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Changes since 1.34: +8 -0 lines
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fixes to pan-genera pipeline

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Wed May 8 16:54:36 2013 UTC (6 years, 6 months ago) by overbeek
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Changes since 1.33: +2 -5 lines
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updates induced by Bob

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Thu May 2 18:07:47 2013 UTC (6 years, 6 months ago) by overbeek
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Changes since 1.32: +1 -1 lines
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reorder esimation of alien pegs

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Thu Apr 18 12:18:13 2013 UTC (6 years, 6 months ago) by overbeek
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Changes since 1.31: +0 -1 lines
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mixed pipelines

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Sat Apr 13 20:58:06 2013 UTC (6 years, 7 months ago) by overbeek
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Changes since 1.30: +1 -0 lines
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have pipeline format inconsistent families to display

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Wed Apr 10 19:15:29 2013 UTC (6 years, 7 months ago) by olson
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Changes since 1.29: +48 -28 lines
Diff to previous 1.29
Modifications to pangenome code to move common code to PG.pm.

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Mon Mar 25 16:33:18 2013 UTC (6 years, 7 months ago) by overbeek
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Changes since 1.28: +17 -0 lines
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copy in genomes

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Thu Mar 21 20:24:52 2013 UTC (6 years, 7 months ago) by overbeek
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Changes since 1.27: +1 -1 lines
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gapfilled

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Thu Mar 21 20:20:48 2013 UTC (6 years, 7 months ago) by overbeek
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Changes since 1.26: +13 -0 lines
Diff to previous 1.26
add gapfilling

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Wed Mar 20 14:11:11 2013 UTC (6 years, 7 months ago) by overbeek
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Changes since 1.25: +1 -1 lines
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add codon usage

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Wed Mar 13 18:45:11 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.24: +2 -0 lines
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get some stats

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Tue Mar 12 16:16:26 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.23: +1 -0 lines
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compute consistency of annotations

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Sat Mar 9 19:08:44 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.22: +6 -0 lines
Diff to previous 1.22
make md5.fams

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Sat Mar 9 17:36:32 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.21: +1 -1 lines
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missing space

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Sat Mar 9 15:40:22 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.20: +1 -0 lines
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form mobile element families

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Sat Mar 9 14:46:27 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.19: +1 -1 lines
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error in computing repeat regions

Revision 1.19 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Mar 8 18:47:24 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.18: +17 -16 lines
Diff to previous 1.18
reorder alien computation

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Fri Mar 8 08:51:46 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.17: +1 -0 lines
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add tabulating reaction inconsistencies

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Mon Mar 4 01:41:38 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.16: +1 -0 lines
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place traits on tree

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Mon Mar 4 01:40:02 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.15: +1 -1 lines
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place events on the tree

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Mar 1 19:41:41 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.14: +1 -0 lines
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make reaction table

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Fri Mar 1 18:45:51 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.13: +5 -0 lines
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build initial models

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Thu Feb 28 21:45:11 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.12: +1 -1 lines
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bad file name for tree

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Thu Feb 28 14:33:23 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.11: +11 -3 lines
Diff to previous 1.11
minor fixes

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Feb 27 21:59:47 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.10: +2 -0 lines
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add call to estimate alien genes

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Feb 27 21:06:34 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.9: +12 -0 lines
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added repeats

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Tue Feb 26 23:22:57 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.8: +1 -0 lines
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add role inconsistencies

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Tue Feb 26 17:46:21 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.7: +10 -1 lines
Diff to previous 1.7
sketch tree

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Tue Feb 26 17:22:14 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.6: +2 -3 lines
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ketch tree

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Tue Feb 26 17:13:54 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.5: +6 -0 lines
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sketch tree

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 25 20:26:05 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.4: +1 -1 lines
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minor

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 25 16:40:45 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.3: +1 -0 lines
Diff to previous 1.3
mixup on inconsistent families

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Mon Feb 25 16:34:20 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.2: +1 -2 lines
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fix parm

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Mon Feb 25 14:47:30 2013 UTC (6 years, 8 months ago) by overbeek
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Changes since 1.1: +2 -3 lines
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fix param passsing

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Feb 24 21:52:10 2013 UTC (6 years, 8 months ago) by overbeek
Branch: MAIN
pg pipeline

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