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Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Oct 4 00:58:56 2007 UTC (12 years, 4 months ago) by overbeek
Branch: MAIN
CVS Tags: HEAD, 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_rel_2008_0625, mgrast_rel_2008_0806, mgrast_rel_2008_0917, mgrast_rel_2008_0919, mgrast_rel_2008_0923, mgrast_rel_2008_0924, mgrast_rel_2008_1110, mgrast_rel_2008_1110_v2, 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_2008_0924, rast_rel_2008_04_23, rast_rel_2008_06_16, rast_rel_2008_06_18, rast_rel_2008_07_21, rast_rel_2008_08_07, rast_rel_2008_09_29, rast_rel_2008_09_30, rast_rel_2008_10_09, rast_rel_2008_10_29, rast_rel_2008_11_24, rast_rel_2008_12_18, rast_rel_2009_02_05, rast_rel_2009_03_26, rast_rel_2009_05_18, rast_rel_2009_07_09, rast_rel_2009_0925, rast_rel_2010_0118, rast_rel_2010_0526, rast_rel_2010_0827, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119, rast_rel_2011_0928, rast_rel_2014_0729, rast_rel_2014_0912, rast_release_2008_09_29
Changes since 1.14: +12 -1 lines
Diff to previous 1.14
check figfams fixes

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Feb 11 18:51:50 2007 UTC (13 years ago) by golsen
Branch: MAIN
Changes since 1.13: +461 -77 lines
Diff to previous 1.13
A total rewrite of this package to provide more general interface to
routines that support adding new sequences to an old tree.

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Feb 11 18:25:48 2007 UTC (13 years ago) by golsen
Branch: MAIN
Changes since 1.12: +69 -12 lines
Diff to previous 1.12
New functions for making big trees.

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jan 29 23:13:27 2007 UTC (13 years ago) by overbeek
Branch: MAIN
Changes since 1.11: +14 -4 lines
Diff to previous 1.11
bring tree insertion up to date

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jan 29 22:55:24 2007 UTC (13 years ago) by golsen
Branch: MAIN
Changes since 1.10: +32 -114 lines
Diff to previous 1.10
Improved packaging of insert functions.

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jan 12 18:45:24 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.9: +2 -4 lines
Diff to previous 1.9
Remove use File::mkstemp. Interfers with creation of new temp files

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jan 11 19:59:54 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.8: +1 -2 lines
Diff to previous 1.8
delete temp directories in phylogeny tools

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jan 9 20:38:26 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.7: +6 -1 lines
Diff to previous 1.7
Adding mktemp and host to generate unique names

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jan 9 19:27:41 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.6: +1 -1 lines
Diff to previous 1.6
use /tmp rather than FIG/Tmp for cluster work

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jan 8 19:47:28 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.5: +10 -8 lines
Diff to previous 1.5
add tree_neighbors and latest phylogeny stuff

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Jan 6 17:39:41 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.4: +14 -5 lines
Diff to previous 1.4
make sure tree insertion code is all committed

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jan 5 02:13:04 2007 UTC (13 years, 1 month ago) by overbeek
Branch: MAIN
Changes since 1.3: +6 -0 lines
Diff to previous 1.3
add make_neigh_joining_tree and make_proml_tree

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Dec 20 15:30:19 2006 UTC (13 years, 2 months ago) by overbeek
Branch: MAIN
Changes since 1.2: +2 -2 lines
Diff to previous 1.2
add bring_tree_up_to_ali

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Dec 15 00:46:54 2006 UTC (13 years, 2 months ago) by overbeek
Branch: MAIN
Changes since 1.1: +11 -1 lines
Diff to previous 1.1
add checkpoints to insertion into trees

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Dec 15 00:09:52 2006 UTC (13 years, 2 months ago) by overbeek
Branch: MAIN
add ability to insert sequences into a tree

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