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Revision 1.50 - (view) (download) (annotate) - [selected]
Mon Dec 5 19:12:12 2005 UTC (14 years, 3 months ago) by olson
Branch: MAIN
CVS Tags: HEAD, caBIG-05Apr06-00, caBIG-13Feb06-00, 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 1.49: +17 -0 lines
Diff to previous 1.49
add license words

Revision 1.49 - (view) (download) (annotate) - [select for diffs]
Sun Jan 23 23:53:16 2005 UTC (15 years, 2 months ago) by golsen
Branch: MAIN
CVS Tags: Root-bobdev_news, caBIG-00-00-00, merge-bobdev_news-1, merge-bobdev_news-2, merge-bodev_news-3, merge-trunktag-bobdev_news-1, merge-trunktag-bobdev_news-2, merge-trunktag-bodev_news-3
Branch point for: Branch-bobdev_news
Changes since 1.48: +48 -67 lines
Diff to previous 1.48 , to selected 1.50
More adding order options to Pick Organisms to Extend list

Revision 1.48 - (view) (download) (annotate) - [select for diffs]
Sun Jan 23 19:48:56 2005 UTC (15 years, 2 months ago) by golsen
Branch: MAIN
Changes since 1.47: +61 -14 lines
Diff to previous 1.47 , to selected 1.50
Add order options to Pick Organisms to Extend list

Revision 1.47 - (view) (download) (annotate) - [select for diffs]
Fri Dec 17 22:39:46 2004 UTC (15 years, 3 months ago) by mkubal
Branch: MAIN
Changes since 1.46: +27 -7 lines
Diff to previous 1.46 , to selected 1.50
be able to see other ss for roles

Revision 1.46 - (view) (download) (annotate) - [select for diffs]
Wed Dec 1 19:10:08 2004 UTC (15 years, 4 months ago) by mkubal
Branch: MAIN
Changes since 1.45: +7 -5 lines
Diff to previous 1.45 , to selected 1.50
ssa2.cgi with auto-extend for cyanos and NMPDR

Revision 1.45 - (view) (download) (annotate) - [select for diffs]
Sat Nov 13 03:45:44 2004 UTC (15 years, 4 months ago) by mkubal
Branch: MAIN
Changes since 1.44: +10 -9 lines
Diff to previous 1.44 , to selected 1.50
revised path and NMPDR extend

Revision 1.44 - (view) (download) (annotate) - [select for diffs]
Sat Nov 13 02:57:24 2004 UTC (15 years, 4 months ago) by mkubal
Branch: MAIN
Changes since 1.43: +204 -2 lines
Diff to previous 1.43 , to selected 1.50
added cyanos and NMPDR extend

Revision 1.43 - (view) (download) (annotate) - [select for diffs]
Wed Sep 1 18:15:45 2004 UTC (15 years, 7 months ago) by mkubal
Branch: MAIN
Changes since 1.42: +8 -1 lines
Diff to previous 1.42 , to selected 1.50
added genome counter to ssa2.cgi

Revision 1.42 - (view) (download) (annotate) - [select for diffs]
Tue Aug 31 14:18:27 2004 UTC (15 years, 7 months ago) by redwards
Branch: MAIN
Changes since 1.41: +2 -2 lines
Diff to previous 1.41 , to selected 1.50
Added the number of contigs in the sequence to the Pick Organisms to Extend with list.
This is an approximate indicator of sequence quality.

Revision 1.41 - (view) (download) (annotate) - [select for diffs]
Tue Aug 31 14:14:55 2004 UTC (15 years, 7 months ago) by redwards
Branch: MAIN
Changes since 1.40: +3 -2 lines
Diff to previous 1.40 , to selected 1.50
Maintains the state of the ignore alternatives checkbox

Revision 1.40 - (view) (download) (annotate) - [select for diffs]
Mon Aug 23 21:46:44 2004 UTC (15 years, 7 months ago) by redwards
Branch: MAIN
Changes since 1.39: +2 -1 lines
Diff to previous 1.39 , to selected 1.50
Added javascript buttons for check all/none
Added color for annotations that are not the same as the primary annotations

Revision 1.39 - (view) (download) (annotate) - [select for diffs]
Tue Aug 10 01:10:05 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.38: +12 -2 lines
Diff to previous 1.38 , to selected 1.50
fix colors on ssa2.cgi

Revision 1.38 - (view) (download) (annotate) - [select for diffs]
Mon Aug 9 11:52:36 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.37: +29 -20 lines
Diff to previous 1.37 , to selected 1.50
fixes to ssa2.cgi relating to alternatives

Revision 1.37 - (view) (download) (annotate) - [select for diffs]
Mon Aug 9 04:20:36 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.36: +58 -35 lines
Diff to previous 1.36 , to selected 1.50
handle alternatives on mismatches

Revision 1.36 - (view) (download) (annotate) - [select for diffs]
Sun Aug 8 23:43:27 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.35: +124 -28 lines
Diff to previous 1.35 , to selected 1.50
include alternatives in ssa2.cgi

Revision 1.35 - (view) (download) (annotate) - [select for diffs]
Thu Aug 5 19:01:11 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.34: +1 -1 lines
Diff to previous 1.34 , to selected 1.50
clean out env samples from spreadsheets

Revision 1.34 - (view) (download) (annotate) - [select for diffs]
Wed Aug 4 23:00:05 2004 UTC (15 years, 7 months ago) by gdpusch
Branch: MAIN
Changes since 1.33: +4 -3 lines
Diff to previous 1.33 , to selected 1.50
Fixed invocation of `align_with_clustal`

Revision 1.33 - (view) (download) (annotate) - [select for diffs]
Wed Aug 4 19:42:10 2004 UTC (15 years, 7 months ago) by olson
Branch: MAIN
Changes since 1.32: +1 -1 lines
Diff to previous 1.32 , to selected 1.50
quote argument to rm -rf

Revision 1.32 - (view) (download) (annotate) - [select for diffs]
Wed Aug 4 19:35:04 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.31: +1 -1 lines
Diff to previous 1.31 , to selected 1.50
force peg ids to stack in spreadsheet cells

Revision 1.31 - (view) (download) (annotate) - [select for diffs]
Sun Jul 25 21:48:15 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.30: +17 -35 lines
Diff to previous 1.30 , to selected 1.50
sort links

Revision 1.30 - (view) (download) (annotate) - [select for diffs]
Fri Jul 23 01:33:38 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.29: +1 -1 lines
Diff to previous 1.29 , to selected 1.50
fixed minor bug in ssa2.cgi

Revision 1.29 - (view) (download) (annotate) - [select for diffs]
Fri Jul 23 01:28:31 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.28: +5 -1 lines
Diff to previous 1.28 , to selected 1.50
fix minor errors associated with subsets in subsystems

Revision 1.28 - (view) (download) (annotate) - [select for diffs]
Tue Jul 20 18:20:14 2004 UTC (15 years, 8 months ago) by olson
Branch: MAIN
Changes since 1.27: +3 -0 lines
Diff to previous 1.27 , to selected 1.50
changes to delete subsystem_index entries when a subsystem is deleted

Revision 1.27 - (view) (download) (annotate) - [select for diffs]
Tue Jul 20 01:48:42 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.26: +8 -1 lines
Diff to previous 1.26 , to selected 1.50
add a few comments to the ssa2.cgi script to explain how to copy and merge subsystems

Revision 1.26 - (view) (download) (annotate) - [select for diffs]
Sun Jul 18 22:58:36 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.25: +207 -16 lines
Diff to previous 1.25 , to selected 1.50
handle bug that lost notes for subsystems

Revision 1.25 - (view) (download) (annotate) - [select for diffs]
Sat Jul 17 12:14:37 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.24: +1 -1 lines
Diff to previous 1.24 , to selected 1.50
show subsystems sorted

Revision 1.24 - (view) (download) (annotate) - [select for diffs]
Fri Jul 16 20:41:26 2004 UTC (15 years, 8 months ago) by overbeek
Branch: MAIN
Changes since 1.23: +30 -40 lines
Diff to previous 1.23 , to selected 1.50
updates to ssa2.cgi and warnings when assignments fail

Revision 1.23 - (view) (download) (annotate) - [select for diffs]
Thu Jul 1 21:27:15 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.22: +1 -1 lines
Diff to previous 1.22 , to selected 1.50
Join fids in spreadsheet with " " instead of "," so web browser
table renderers will split lines when necessary.

Revision 1.22 - (view) (download) (annotate) - [select for diffs]
Tue Jun 29 14:15:57 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.21: +2 -2 lines
Diff to previous 1.21 , to selected 1.50
Fix

Revision 1.21 - (view) (download) (annotate) - [select for diffs]
Mon Jun 28 20:13:34 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.20: +23 -1 lines
Diff to previous 1.20 , to selected 1.50
Add <a name> tags to subsystem spreadsheet.

Revision 1.20 - (view) (download) (annotate) - [select for diffs]
Fri Jun 18 15:57:30 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.19: +0 -2 lines
Diff to previous 1.19 , to selected 1.50
Remove debug warn.

Revision 1.19 - (view) (download) (annotate) - [select for diffs]
Fri Jun 18 14:17:12 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.18: +4 -1 lines
Diff to previous 1.18 , to selected 1.50
Fix bad bug in publish checkbox code.

Revision 1.18 - (view) (download) (annotate) - [select for diffs]
Wed Jun 16 16:52:10 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.17: +1 -0 lines
Diff to previous 1.17 , to selected 1.50
Modifications to fix & finish up the automated subsystem extension.

Revision 1.17 - (view) (download) (annotate) - [select for diffs]
Wed Jun 16 14:07:13 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.16: +65 -2 lines
Diff to previous 1.16 , to selected 1.50
Add support for invoking the Prolog subsystem extension code.

Revision 1.16 - (view) (download) (annotate) - [select for diffs]
Tue Jun 8 21:34:11 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.15: +31 -6 lines
Diff to previous 1.15 , to selected 1.50
add code to do batch assignments

Revision 1.15 - (view) (download) (annotate) - [select for diffs]
Tue Jun 8 20:25:51 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.14: +83 -0 lines
Diff to previous 1.14 , to selected 1.50
add new stuff for show_msising

Revision 1.14 - (view) (download) (annotate) - [select for diffs]
Mon Jun 7 19:11:33 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.13: +2 -1 lines
Diff to previous 1.13 , to selected 1.50
fix delete button

Revision 1.13 - (view) (download) (annotate) - [select for diffs]
Tue Jun 1 20:41:11 2004 UTC (15 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.12: +12 -0 lines
Diff to previous 1.12 , to selected 1.50
Add a call to db_sync() on the subsystem after it is written.

Revision 1.12 - (view) (download) (annotate) - [select for diffs]
Wed May 26 22:33:56 2004 UTC (15 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.11: +1 -1 lines
Diff to previous 1.11 , to selected 1.50
only allow curator to publish

Revision 1.11 - (view) (download) (annotate) - [select for diffs]
Wed May 26 22:32:15 2004 UTC (15 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.10: +6 -0 lines
Diff to previous 1.10 , to selected 1.50
Add ss_export functionality.

Revision 1.10 - (view) (download) (annotate) - [select for diffs]
Thu May 20 13:38:37 2004 UTC (15 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.9: +51 -5 lines
Diff to previous 1.9 , to selected 1.50
add "show input to alignment tool" option

Revision 1.9 - (view) (download) (annotate) - [select for diffs]
Wed May 19 21:34:23 2004 UTC (15 years, 10 months ago) by overbeek
Branch: MAIN
Changes since 1.8: +5 -0 lines
Diff to previous 1.8 , to selected 1.50
fixed multiple identical rows in ssa due to import

Revision 1.8 - (view) (download) (annotate) - [select for diffs]
Tue May 4 18:19:55 2004 UTC (15 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.7: +72 -11 lines
Diff to previous 1.7 , to selected 1.50
Added publish-to-clearinghouse support.

Reordered columns a bit.

Revision 1.7 - (view) (download) (annotate) - [select for diffs]
Mon Apr 26 11:54:25 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.6: +9 -6 lines
Diff to previous 1.6 , to selected 1.50
on refill for ssa2.cgi, there are no bad entries

Revision 1.6 - (view) (download) (annotate) - [select for diffs]
Mon Apr 19 11:36:40 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.5: +12 -4 lines
Diff to previous 1.5 , to selected 1.50
fix a bad bug in assignment permissions

Revision 1.5 - (view) (download) (annotate) - [select for diffs]
Mon Apr 12 17:39:41 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.4: +4 -2 lines
Diff to previous 1.4 , to selected 1.50
fix ugly bug in ssa2.cgi - failed to pass can_alter flag properly

Revision 1.4 - (view) (download) (annotate) - [select for diffs]
Sat Apr 10 00:33:53 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.3: +6 -3 lines
Diff to previous 1.3 , to selected 1.50
fix language in ssa intro

Revision 1.3 - (view) (download) (annotate) - [select for diffs]
Fri Apr 9 22:29:30 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.2: +172 -82 lines
Diff to previous 1.2 , to selected 1.50
minimal protection against overwriting

Revision 1.2 - (view) (download) (annotate) - [select for diffs]
Fri Apr 2 18:14:45 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Changes since 1.1: +10 -9 lines
Diff to previous 1.1 , to selected 1.50
fixes on ssa.cgi/ssa2.cgi

Revision 1.1 - (view) (download) (annotate) - [select for diffs]
Fri Apr 2 18:02:21 2004 UTC (15 years, 11 months ago) by overbeek
Branch: MAIN
Diff to selected 1.50
add a new version of the spreadsheet software

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