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Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 17 21:35:24 2009 UTC (10 years, 3 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_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_2010_0118, rast_rel_2010_0526, rast_rel_2010_0827, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119
Changes since 1.13: +3 -2 lines
Diff to previous 1.13 , to selected 1.11
Distro fixups

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Feb 7 21:35:39 2008 UTC (12 years, 1 month ago) by overbeek
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_rel_2009_0925, rast_release_2008_09_29
Changes since 1.12: +13 -0 lines
Diff to previous 1.12 , to selected 1.11
implemented new version of dsims based on partitions

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 6 13:59:34 2007 UTC (12 years, 4 months ago) by parrello
Branch: MAIN
Changes since 1.11: +23 -23 lines
Diff to previous 1.11
Changed POD format for better compatability with Wiki.

Revision 1.11 - (view) (download) (as text) (annotate) - [selected]
Mon Jun 11 17:32:45 2007 UTC (12 years, 9 months ago) by parrello
Branch: MAIN
Changes since 1.10: +1 -1 lines
Diff to previous 1.10
Converted a USE to a REQUIRE to remove duplicate-method compiler warnings.

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jun 1 16:01:13 2007 UTC (12 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.9: +1 -1 lines
Diff to previous 1.9 , to selected 1.11
Rollup of changes for the new RAST install.

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Mar 27 17:58:40 2007 UTC (13 years ago) by overbeek
Branch: MAIN
Changes since 1.8: +9 -0 lines
Diff to previous 1.8 , to selected 1.11
Added "feature2()" method to support FIGO.

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Oct 16 07:16:16 2006 UTC (13 years, 5 months ago) by parrello
Branch: MAIN
Changes since 1.7: +262 -67 lines
Diff to previous 1.7 , to selected 1.11
Cleaned and presed for documentation purposes.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 5 19:06:30 2005 UTC (14 years, 4 months ago) by olson
Branch: MAIN
CVS Tags: caBIG-05Apr06-00, caBIG-13Feb06-00
Changes since 1.6: +17 -0 lines
Diff to previous 1.6 , to selected 1.11
Added license words.

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 29 21:25:46 2005 UTC (14 years, 7 months ago) by olson
Branch: MAIN
CVS Tags: caBIG-00-00-00, caBIG-dataload-0
Changes since 1.5: +48 -0 lines
Diff to previous 1.5 , to selected 1.11
Add methods:

$sim = Sim->new_from_line($line): create a new sim object from a tab-delimited line of text.

$sim->as_line(): return a tab-delimited line of text for hte sim (including terminating newline)

$sim->validate(): return true if the sim is valid.

The class also overloads the convert-to-string method, so you can do stuff like

print "the sim is $sim\n";

and generate output

the sim is sim:kegg|aae:aq_016a->uni|O66436:4.6e-38

right now it just includes id1, id2, and psc. Implemented in Sim.pm as_string() method.

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 1 22:22:13 2005 UTC (14 years, 8 months ago) by parrello
Branch: MAIN
Changes since 1.4: +18 -18 lines
Diff to previous 1.4 , to selected 1.11
Changed attributes to capital-case in order to prevent the avalanche of compile-time warnings.

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jun 9 05:36:30 2005 UTC (14 years, 9 months ago) by parrello
Branch: MAIN
CVS Tags: Root-bobdev_news, 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 1.3: +0 -2 lines
Diff to previous 1.3 , to selected 1.11
*** empty log message ***

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 13 01:09:27 2004 UTC (15 years, 7 months ago) by overbeek
Branch: MAIN
Changes since 1.2: +20 -20 lines
Diff to previous 1.2 , to selected 1.11
Reordered access-functions into field order. -- /gdp

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jun 8 20:26:05 2004 UTC (15 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.1: +23 -18 lines
Diff to previous 1.1 , to selected 1.11
add scalar annotations

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 1 16:54:26 2003 UTC (16 years, 4 months ago) by efrank
Branch: MAIN
Branch point for: initial
Diff to selected 1.11
Initial revision

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