Revision 143 - (view) (annotate) - [select for diffs]
Modified Tue May 15 10:06:47 2007 UTC (17 years, 5 months ago) by duarte
File length: 21982 byte(s)
Diff to previous 142

FIXED BUG: last commit didn't fix bug correctly:
Changed the ContactMap constructor to put into residueNums and residueTypes nums from 1 to maximum of residues.keySet()

Made public accode and chain fields in Graph

Revision 142 - (view) (annotate) - [select for diffs]
Modified Tue May 15 08:33:44 2007 UTC (17 years, 5 months ago) by duarte
File length: 21397 byte(s)
Diff to previous 131

FIXED BUG: getCM wasn't working well when reading from db and there were unobserved residues

Now setting the sequence to blank when reading from db. Also when reading from file (still nodes reading is not implemented)
In ContactMap constructor different handling when sequence is blank

Revision 131 - (view) (annotate) - [select for diffs]
Modified Thu May 10 15:53:14 2007 UTC (17 years, 5 months ago) by duarte
File length: 20942 byte(s)
Diff to previous 129

2 new convenience methods: getBoolMatrix and getIntMatrix
Got rid of method to print constraint equations, was useless

Revision 129 - (view) (annotate) - [select for diffs]
Modified Thu May 10 13:12:32 2007 UTC (17 years, 5 months ago) by duarte
File length: 20817 byte(s)
Diff to previous 128

NEW FUNCTIONALITY: can retrieve now a ContactMap object from a Graph object
New method getCM in Graph. New member variables: sequence, accode, chain, nodes, directed
Passing more data from Pdb to Graph in get_graph
New constructor in ContactMap

Revision 128 - (view) (annotate) - [select for diffs]
Added Wed May 9 16:29:39 2007 UTC (17 years, 5 months ago) by duarte
File length: 18630 byte(s)

ContactMap and EdgeState classes moved here from CMPredict repository