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Analyzed 1 day ago. based on code collected 2 days ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
Nov 03, 2025 — Nov 03, 2026 Showing page 232 of 243 Search / Filter on:
update to latest version of alignment module	Andreas Prlic	More...				over 16 years ago
fixing compile error with new Alignment code	Andreas Prlic	More...				over 16 years ago
fixing compile error with new Alignment code	Andreas Prlic	More...				over 16 years ago
fixing compile error with new Alignment code	Andreas Prlic	More...				over 16 years ago
Deepak's GenbankFormat DocRef fixes.	Richard Holland	More...				over 16 years ago
The alignment algorithms NeedlemanWunsch and SmithWaterman have been revised and are now based on a Alignment data structure that strongly eases using the result.	Andreas Dräger	More...				over 16 years ago
Improved Alignment classes: Now we have an alignment object that contains all information about the alignment instead of simply having a String output. This formatation algorithm has also been improved and should now be much faster and has become much simpler. Furthermore, many generic type attributes have been added. However, additional tests are necessary to make the new framework run properly.	Andreas Dräger	More...				over 16 years ago
Introduced generic type arguments.	Andreas Dräger	More...				over 16 years ago
Introduced generic type arguments.	Andreas Dräger	More...				over 16 years ago
Introduced generic type arguments.	Andreas Dräger	More...				over 16 years ago
Made the debug function that prints the cost matrix more efficient.	Andreas Dräger	More...				over 16 years ago
renaming class to indicate there is nothing to test in myTestHelper	Andreas Prlic	More...				over 16 years ago
adding property file for jfatcat	Andreas Prlic	More...				over 16 years ago
update of NR of APFchains in file, since this got changed.	Andreas Prlic	More...				over 16 years ago
Added XML Helper to hide the Java XML api and do some xpath tricks to speed up performance	Scooter Willis	More...				over 16 years ago
Changes to handle adding of features from GFF file	Scooter Willis	More...				over 16 years ago
Changes to handle adding of features from GFF file	Scooter Willis	More...				over 16 years ago
Added the RIPC alignment to the test resources.	sbliven as Spencer Bliven	More...				over 16 years ago
Created a new test package to benchmark structural alignment algorithms, src/test/java/org/biojava/bio/structure/align/benchmark. Added a parser for the RIPC manual alignment file, as well as several classes to store benchmark alignments.	sbliven as Spencer Bliven	More...				over 16 years ago
Allowing the movement from positive to negative & vica-versa from the object strand. It's a dumb method but useful we can do this	Andy Yates	More...				over 16 years ago
Implementing basic circularity. Assertions about locations is done only if it's not a curcular location	Andy Yates	More...				over 16 years ago
docu typo	Andreas Prlic	More...				over 16 years ago
now allows to configure max nr of twists parameter and better toString()	Andreas Prlic	More...				over 16 years ago
setting parameter to default value	Andreas Prlic	More...				over 16 years ago
adding new module biojava3-genome	Andreas Prlic	More...				over 16 years ago
removing print	Andreas Prlic	More...				over 16 years ago
now showing parameters in Jmol frame title	Andreas Prlic	More...				over 16 years ago
correct display of new parameter config	Andreas Prlic	More...				over 16 years ago
now all variations of CE can be run via one Calculator class. Config via Parameters button	Andreas Prlic	More...				over 16 years ago
now all variations of CE can be run via one Calculator class. Config via Parameters button	Andreas Prlic	More...				over 16 years ago

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