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Revision 1.19 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 3 21:31:42 2009 UTC (10 years, 3 months ago) by parrello
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_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, myrast_33, myrast_rel40, 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
Changes since 1.18: +89 -1 lines
Diff to previous 1.18
Updated to Sapling Server for Berkeley.

Revision 1.18 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 22 17:02:05 2009 UTC (10 years, 4 months ago) by parrello
Branch: MAIN
Changes since 1.17: +49 -4 lines
Diff to previous 1.17
Updated for in_runs.

Revision 1.17 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 15 23:37:46 2009 UTC (10 years, 4 months ago) by parrello
Branch: MAIN
Changes since 1.16: +211 -7 lines
Diff to previous 1.16
Updates for operon pipeline.

Revision 1.16 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Feb 5 00:04:25 2008 UTC (11 years, 9 months ago) by parrello
Branch: MAIN
CVS Tags: 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, 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_release_2008_09_29
Changes since 1.15: +2 -6 lines
Diff to previous 1.15
Added some new methods for the backfill gaps code in RAST.

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jan 18 23:09:53 2008 UTC (11 years, 10 months ago) by parrello
Branch: MAIN
Changes since 1.14: +0 -298 lines
Diff to previous 1.14
Fixed some documentation.

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 6 13:38:11 2007 UTC (11 years, 11 months ago) by parrello
Branch: MAIN
Changes since 1.13: +87 -98 lines
Diff to previous 1.13
Changed POD format for better compatability with Wiki.

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Thu May 17 23:35:28 2007 UTC (12 years, 6 months ago) by parrello
Branch: MAIN
Changes since 1.12: +2 -2 lines
Diff to previous 1.12
Fixed a bug in the widening code for backward locations.

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Apr 18 23:58:17 2007 UTC (12 years, 7 months ago) by parrello
Branch: MAIN
Changes since 1.11: +151 -44 lines
Diff to previous 1.11
Added methods to lengthen locations and to return a number indicating the direction (1 for forward, -1 for backward).

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Apr 10 03:26:19 2007 UTC (12 years, 7 months ago) by parrello
Branch: MAIN
Changes since 1.10: +94 -0 lines
Diff to previous 1.10
Added methods to determine whether or not two locations are adjacent to each other.

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jun 21 03:09:41 2006 UTC (13 years, 5 months ago) by parrello
Branch: MAIN
Changes since 1.9: +108 -2 lines
Diff to previous 1.9
Added methods for merging and combining locations.

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Apr 19 03:38:32 2006 UTC (13 years, 7 months ago) by parrello
Branch: MAIN
Changes since 1.8: +235 -0 lines
Diff to previous 1.8
Added new methods required by upstream computations.

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Feb 3 03:34:04 2006 UTC (13 years, 9 months ago) by parrello
Branch: MAIN
CVS Tags: caBIG-05Apr06-00, caBIG-13Feb06-00
Changes since 1.7: +29 -1 lines
Diff to previous 1.7
Added a method to parse out the SEED elements of a location string.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jan 13 06:53:33 2006 UTC (13 years, 10 months ago) by parrello
Branch: MAIN
Changes since 1.6: +30 -0 lines
Diff to previous 1.6
Added a method to convert SEED locations to Sprout locations.

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jan 11 19:26:10 2006 UTC (13 years, 10 months ago) by parrello
Branch: MAIN
Changes since 1.5: +95 -4 lines
Diff to previous 1.5
Added a method for widening a location by a certain number of positions in each direction.

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 5 19:06:30 2005 UTC (13 years, 11 months ago) by olson
Branch: MAIN
Changes since 1.4: +17 -0 lines
Diff to previous 1.4
Added license words.

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Sep 14 14:46:59 2005 UTC (14 years, 2 months ago) by parrello
Branch: MAIN
CVS Tags: caBIG-00-00-00, caBIG-dataload-0
Changes since 1.3: +1 -1 lines
Diff to previous 1.3
Fixed a bug in the Peel method for backward locations.

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 8 20:03:18 2005 UTC (14 years, 3 months ago) by parrello
Branch: MAIN
Changes since 1.2: +2 -2 lines
Diff to previous 1.2
Clarified a comment.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 27 19:42:55 2005 UTC (14 years, 3 months ago) by parrello
Branch: MAIN
Changes since 1.1: +139 -1 lines
Diff to previous 1.1
Fixed an error in the "SetBegin" and "SetEnd" methods.

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jul 26 19:59:59 2005 UTC (14 years, 4 months ago) by parrello
Branch: MAIN
Added to replace the "Location" object as an object that allows manipulation of an atomic location on a contig.

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