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Analyzed 12 months ago. based on code collected 12 months ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
Jan 18, 2023 — Jan 18, 2024 Showing page 282 of 297 Search / Filter on:
Doc maintained. Changes in printing numpy arrays to avoid doctest error messages.	Ahmet Bakan	More...				over 13 years ago
_startLogger is renamed as startPackageLogger and changed to make it copying to other packages easier.	Ahmet Bakan	More...				over 13 years ago
loadModel checks validity of the input file and the of the model in the file.	Ahmet Bakan	More...				over 13 years ago
Changes is updated.	Ahmet Bakan	More...				over 13 years ago
Docs updated.	Ahmet Bakan	More...				over 13 years ago
parsePDB is changed to avoid overwriting name of of a user given AtomGroup.	Ahmet Bakan	More...				over 13 years ago
A bug in AtomGroup.addCoordset duplicating coordinates when no coordset is in the instance is fixed.	Ahmet Bakan	More...				over 13 years ago
Doc updated.	Ahmet Bakan	More...				over 13 years ago
parsePSF function is implemented.	Ahmet Bakan	More...				over 13 years ago
parsePDB accepts AtomGroup instances as ag argument (issue #62 completed).	Ahmet Bakan	More...				over 13 years ago
Doctest updated to reflect changes in acsi.	Ahmet Bakan	More...				over 13 years ago
Select class throws an exception when coordinates of atoms are not set.	Ahmet Bakan	More...				over 13 years ago
_acsi is set to None AtomGroup instance has not coordinate sets. __repr__ functions does not print acsi when it is None.	Ahmet Bakan	More...				over 13 years ago
To avoid IndexError exceptions _getTimeStamp function returns None when no coordinate sets present.	Ahmet Bakan	More...				over 13 years ago
pyparsing is updated to version 1.5.6	Ahmet Bakan	More...				over 13 years ago
Doc maintained.	Ahmet Bakan	More...				over 13 years ago
Fixed two bugs: (i) negative residue numbers was not handled correctly (ii) same residue as was not interpreted correctly when specific chains were involved.	Ahmet Bakan	More...				over 13 years ago
fetchLigandData doc is expanded. Download stats is updated.	Ahmet Bakan	More...				over 13 years ago
blastPDB is not using SeqRecord.seq.data which is deprecated.	Ahmet Bakan	More...				over 13 years ago
fetchLigandData is made more stable by avoiding exceptions raised when a dict item or xml element is not found.	Ahmet Bakan	More...				over 13 years ago
ProDyProgress cleans the stderr before printing a new line.	Ahmet Bakan	More...				over 13 years ago
fetchLigandData accepts lower case chemical component identifiers.	Ahmet Bakan	More...				over 13 years ago
Docs updated.	Ahmet Bakan	More...				over 13 years ago
fetchLigandData can parse local XML files (completes issue #58).	Ahmet Bakan	More...				over 13 years ago
fetchLigandData is using urllib2 and hanling exceptions due to wrong chemical component identifiers. Also local files are parsed (issue #58).	Ahmet Bakan	More...				over 13 years ago
When format of XML is different a warning is issued, completes issue #59	Ahmet Bakan	More...				over 13 years ago
loadAtoms is updated to work with new AtomGroup class (issue #60 is resolved). A but in Atom._getCoordsets method is fixed.	Ahmet Bakan	More...				over 13 years ago
loadAtoms function is optimized and imporved to handle Atom instances. _getAttribute method is defined for AtomPointer classes.	Ahmet Bakan	More...				over 13 years ago
Doc maintained.	Ahmet Bakan	More...				over 13 years ago
Bugfix in AtomGroup.copy method. Copy of data arrays were not made if AtomGroup instance was copied.	Ahmet Bakan	More...				over 13 years ago

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