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r1704
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aglappe-0.4/ 164 (8 years ago) by duarte:
aglappe-0.5/ 188 (8 years ago) by duarte: Tagging version 0.5 for release of CM2PyMol version 0.5
aglappe-0.6/ 197 (8 years ago) by duarte: Tagging version 0.6 for release of cmview 0.6
aglappe-0.7/ 201 (8 years ago) by stehr: tagging version 0.7 matching CM2PyMol 0.7
aglappe-0.8/ 205 (8 years ago) by stehr:
aglappe-0.8.1/ 220 (8 years ago) by stehr: tagging aglappe 0.8.1 to use with cmview 0.8.1
aglappe-0.8.2/ 251 (8 years ago) by stehr: tagging version 0.8.2 to be used with CM2PyMol 0.8.2
aglappe-0.8.3/ 304 (8 years ago) by stehr: tagging version 0.8.3 corresponding to CMView 0.8.3
aglappe-0.8.5/ 364 (8 years ago) by stehr: tagging version 0.8.5 in sync with CMView-0.8.5
aglappe-0.8.6/ 440 (8 years ago) by duarte: Tagging ver. 0.8.6. This will be the last pre-JUNG tag
aglappe-0.8.7/ 490 (8 years ago) by duarte: Tagging version 0.8.7 from trunk: last pre-JUNG before merging the JUNG branch to the trunk
aglappe-0.9/ 494 (8 years ago) by stehr: Tagging version 0.9 to use with CMView 0.9 (same as aglappe-jung 0.1.2 but moved to trunk)
aglappe-0.9.1/ 510 (8 years ago) by stehr: tagging version 0.9.1 for CMView 0.9.1
aglappe-0.9.2/ 527 (8 years ago) by duarte: Tagging ver 0.9.2 for CMView 0.9.2
aglappe-0.9.3/ 555 (8 years ago) by duarte: Tagging 0.9.3 for CMView release 0.9.3
aglappe-0.9.4/ 676 (7 years ago) by duarte: Tagging ver. 0.9.4 matching CMView 0.9.4
aglappe-0.9.5/ 692 (7 years ago) by stehr: tagging version 0.9.5 matching CMView 0.9.5
aglappe-0.9.6/ 732 (7 years ago) by duarte: Tagging ver 0.9.6 for CMView 0.9.6. Now using jung beta1 jars.
aglappe-1.1.0/ 731 (7 years ago) by duarte: Tagging ver 1.1.0 for CMView 1.1.0. Now using jung beta1 jars.
aglappe-1.1.1/ 881 (6 years ago) by duarte: Tagging 1.1.1 before major changes
aglappe-1.1.2/ 949 (6 years ago) by duarte: Tagging version 1.1.2 before major refactoring.
aglappe-jung-0.1/ 473 (8 years ago) by lpetzo: to be used for CMView-jung-0.1
aglappe-jung-0.1.1/ 476 (8 years ago) by lpetzo: version for CMView-jung-0.1.1
aglappe-jung-0.1.2/ 486 (8 years ago) by lpetzo: version for CMView-jung-0.1.2
owl-1.2.0/ 1003 (6 years ago) by hstehr: tagging OWL 1.2.0 in sync with CMView 1.2.0 before major refactoring
owl-1.9.0/ 1303 (5 years ago) by hstehr: tagging version 1.9.0 matching CMView 1.9.0 released as 1.1rc3
owl-1.9.1/ 1323 (5 years ago) by hstehr: tagging version 1.9.1 to match CMView-1.9.1-released-as-1.1rc4
owl-1.9.2/ 1369 (5 years ago) by jmduarteg: tagging owl-1.9.2 to match CMView-1.9.2-released-as-1.1rc5
owl-1.9.3/ 1371 (5 years ago) by jmduarteg: Tagging owl-1.9.3 before major interface change.
owl-1.9.4/ 1393 (4 years ago) by jmduarteg: Tagging version 1.9.4 before major change: support for HETATMs
owl-1.9.5/ 1418 (4 years ago) by jmduarteg: Tagging version 1.9.5. Many bug fixes after introduction of hetatoms, especially with regards to read/write of PDB files. First tag with hetatoms-support.
owl-for-cmview-1.9.4/ 1440 (4 years ago) by jmduarteg: Tagging from bug fix branch for bug fixed version of CMView 1.9.4 (released as 1.1.1). Important bug fix of DaliRunner
owl-for-crk-1.9.1/ 1469 (4 years ago) by jmduarteg: Tagging version for crk 1.9.1
owl-for-crk-1.9.2/ 1502 (4 years ago) by jmduarteg: Tagging version for crk 1.9.2
owl-for-crk-1.9.3/ 1528 (4 years ago) by jmduarteg: Tagging for crk version 1.9.3
owl-for-crk-1.9.4/ 1549 (4 years ago) by jmduarteg: Tagging for crk release 1.9.4
owl-for-eppic-1.9.5/ 1571 (3 years ago) by jmduarteg: Tagging for eppic release 1.9.5. - better alignment in HomologsList - better redundancy reduction in HomologList through clustering - many bug fixes, a few of them in parsers
owl-for-eppic-1.9.6/ 1600 (3 years ago) by jmduarteg: Tagging for eppic release 1.9.6. - totally redone interface calculation: huge improvements in runtime and memory usage, explores also 2nd neighbours, uses symmetry-redundancy elimination, bugs fixed - introduced minimum ASA threshold for considering residue at surface - cofactors can now be used for ASA calculation in interfaces - blast runner now chooses matrix to use based on sequence length as it is standard use in blast servers - introduced blast+ support - introduced clustalo support in HomologsList - improvements and important fixes in HomologsList alignments
owl-for-eppic-2.0.0/ 1631 (3 years ago) by jmduarteg: Tagging for eppic release 2.0.0 - many bug fixes, especially in cif and pdb parsers. Now hopefully a lot more robust. Cif parser was tested in whole PDB as of Feb 2013. File guesser will be more flexible with PDB files: it allows now a lot more possible first lines - all elements added to AtomType - better dealing with unknown elements when reading from PDB file - fixed bug in ASA calculation: for finding neighbours we were taking default vdw radius instead of one set in setRadius - BlastXML parser can now read both raw xml and gzipped xml blast output (autodetecting it)
owl-for-eppic-2.0.1/ 1640 (3 years ago) by jmduarteg: Tagging for eppic release 2.0.1 - fixed bug: can't read 'I 1 2 1' space group. Now using both main and alternative names for looking up space groups
owl-for-eppic-2.0.2/ 1664 (2 years ago) by jmduarteg: Tagging for eppic release 2.0.2 - bug fix: null pointer in pdb file parsing when no TER records present or misplaced - many improvements in SpaceGroup and its testing - operators can now be classified into their types, including calculation of screw directions - bug fix: the axis vectors were wrongly calculated for some operators of some space groups, e.g. in H 3 2 or P 32 2 1 - bug fix in jaligner: sequences longer than 32768 characters were not aligning correctly when the match was occurring after character 32768. We fixed it ourselves in the jaligner source and repackaged the jar into owl. The jaligner developer has fixed it in git.
owl-for-eppic-2.0.3/ 1693 (2 years ago) by jmduarteg: Tagging for eppic release 2.0.3 - more PDB metadata parsing: biounit assembly and release date - improved rmsd calculation: new OptimalSuperposition class introduced - improvements in interface calculation: now going to 12th cell - introduced chain clusters and interface clusters - some more checks in cif file parsing: now won't crash on phenix files
owl-for-eppic-2.0.4/ 1694 (2 years ago) by jmduarteg: Tagging for eppic release 2.0.4: no changes from last owl release.
tools-0.1/ 82 (10 years ago) by duarte: Creation of tools version 0.1: Freezing tools rev81 to tag tools-0.1 I am planning to change completely some of the classes: DataDistribution and ClusterConnection. Will continue developing on trunk while we have this freeze so others can use programs as they are now.
tools-0.2/ 91 (10 years ago) by duarte: Creating of tools version 0.2: Freeze of tools package at rev89. New classes QueryThread and DataDistributer. Reorganised DataDistribution (split into DataDistribution and DataDistributer) Main functionality difference is that dump/loads of databases are now threaded thus being a lot faster (some parellelism in dumps/loads)
tools-0.3/ 101 (9 years ago) by duarte: tools version 0.3 from rev98. To use with jed (includes new TableSorter)
tools-0.3.1/ 103 (9 years ago) by duarte: Tag 0.3.1 at rev 102. Introduced slight modifications in DataDistributer class to use with dumpnload.java
tools-0.3.2/ 105 (9 years ago) by duarte: Tagging at rev104, slight modifications in DataDistributer. To be used with a slightly improved dumpnload.java
tools-0.3.3/ 111 (9 years ago) by duarte: Tagging version 0.3.3. at rev110 after adding some renaming getNodes method to getMySQLNodes in DataDistribution and adding some functionality
tools-0.3.4/ 122 (9 years ago) by stehr: tagged version 0.3.4
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