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r628
File (rev) Last Change
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Sequence.java 612 (11 years ago) by duarte: Now checking wheter read sequence contains spaces and throwing FastaFileFormatError
PsipredRunner.java 590 (11 years ago) by duarte: Added code to run psipred. Fixed a few minor bugs.
PsipredError.java 590 (11 years ago) by duarte: Added code to run psipred. Fixed a few minor bugs.
GTGParser.java 627 (11 years ago) by duarte: Yet another format check
GTGHitList.java 625 (11 years ago) by duarte: Fixed bug: wasn't catching wrong format in GTG output
GTGHit.java 623 (11 years ago) by duarte: Fixed bug: now catching when the mapping of observed residue sequence serials to internal residue serials is out of range, which happens in some extremely rare cases (because GTG uses pre-remediation data)
BlastUtils.java 628 (11 years ago) by duarte: Now writeClusterGraph uses rmsd for similarity measure instead of GDT (maxcluster was failing almost always with GDT)
BlastTabularParser.java 577 (11 years ago) by duarte: New package sequence. Initial commit of classes to run blast and parse its output.
BlastRunner.java 593 (11 years ago) by stehr: merged in some changes (now writing similarity matrix in blast utils)
BlastHitList.java 622 (11 years ago) by duarte: Added code to be able to filter out template ids (pdb codes) by maximum release date. Some improvements in Hit classes.
BlastHit.java 619 (11 years ago) by duarte: Added methods to be able to print "graphical" output for GTGHits, all equivalent to the methods in BlastHit Added compare() and writeIdsToFile() in TemplateList.
BlastError.java 577 (11 years ago) by duarte: New package sequence. Initial commit of classes to run blast and parse its output.
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