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Revision 1305 - Directory Listing
Modified Fri Jan 21 10:11:16 2011 UTC (9 years, 9 months ago) by jmduarteg
Renaming all xxxxError named exceptions to xxxxException. Long overdue thing (was historical because it came from python). Learnt just recently that java does have a concept of Error too.
Revision 1304 - Directory Listing
Modified Sun Jan 16 16:06:09 2011 UTC (9 years, 9 months ago) by jmduarteg
Fixed important bug: we didn't model the blast data properly. A hit is composed of several hsps. Now our classes following that data model properly (before we treated a hit as an hsp).
Revision 1070 - Directory Listing
Modified Wed May 19 16:20:42 2010 UTC (10 years, 5 months ago) by jmduarteg
Fixed bug in TcoffeeRunner. The t_coffee process was hanging after spawning. This didn't happen before, it can be related to the version of t_coffee (I'm using 8.14). Basically t_coffee seems to be doing something weird with stderr and stdout, java doesn't like it and makes the process hang (as usual java has a lot of problems in this area, see StreamGobbler class). The way to solve it is use the -quiet switch of t_coffee that can be used to redirect output to a file or have a complete quiet terminal.
Revision 1009 - Directory Listing
Modified Wed Mar 31 15:50:04 2010 UTC (10 years, 6 months ago) by hstehr
refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
Revision 1007 - Directory Listing
Modified Wed Mar 31 13:27:18 2010 UTC (10 years, 6 months ago) by hstehr
Copied from: trunk/src/casp/pipeline revision 1005
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
Revision 1005 - Directory Listing
Modified Wed Mar 31 12:29:26 2010 UTC (10 years, 6 months ago) by hstehr
Original Path: trunk/src/casp/pipeline
refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
Revision 973 - Directory Listing
Added Tue Feb 23 14:32:00 2010 UTC (10 years, 7 months ago) by duarte
Original Path: trunk/src/casp/pipeline
Moving the CASP project into OWL as the casp package.