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Commits : Listings

Analyzed 1 day ago. based on code collected 3 days ago.
Nov 05, 2025 — Nov 05, 2026
Commit Message Contributor Files Modified Lines Added Lines Removed Code Location Date
Added a new parameter to the AFPChain class to control the color of the subunits (blocks) in the jmol and alignment panel for the CE-Symm. This parameter is used in StructureAlignmentJmol and AligPanel to set the color of the blocks (if the parameter is null the default color is set). A bug in the coloring of the blocks in AligPanel has ben fixed, because a variables was incremented before a statement. Furthermore, when coloring the gaps the spaces in the symb variable of AFPChain are not considered if the alignment is not FatCat, which has also been changed.
lafita
More... over 11 years ago
Merge branch 'minor'
josemduarte
More... over 11 years ago
Merge branch 'patch' into minor
josemduarte
More... over 11 years ago
Added another test for CrystalBuilder
josemduarte
More... over 11 years ago
Merge branch 'minor' into master
sbliven
as Spencer Bliven
More... over 11 years ago
Merge branch 'patch' into minor
sbliven
as Spencer Bliven
More... over 11 years ago
Merge pull request #261 from sbliven/minor
sbliven
as Spencer Bliven
More... over 11 years ago
Merge branch 'noEcodTest' into minor
sbliven
as Spencer Bliven
More... over 11 years ago
Improving memory efficiency of EcodFactory
sbliven
as Spencer Bliven
More... over 11 years ago
Moved the notifymatrix listener and added some comments to the trace manipulation in the CECalculator, in order to find were the blackout regions were being ignored and because of that the optimization used them.
lafita
More... over 11 years ago
More ECOD format changes
sbliven
as Spencer Bliven
More... over 11 years ago
First round of fixes to ECOD format
sbliven
as Spencer Bliven
More... over 11 years ago
Added a more complex test for NeedlemanWunsch using an alignment done by hand.
dmyersturnbull
More... over 11 years ago
Added a more complex test for NeedlemanWunsch using an alignment done by hand.
dmyersturnbull
More... over 11 years ago
[maven-release-plugin] prepare for next development iteration
Michael Heuer
More... over 11 years ago
[maven-release-plugin] prepare release biojava-legacy-1.9.2
Michael Heuer
More... over 11 years ago
Merge pull request #26 from heuermh/master
Michael Heuer
as Michael L Heuer
More... over 11 years ago
adapting commit 93245fe to use smaller test files
Michael Heuer
More... over 11 years ago
Merge pull request #25 from heuermh/issue-24
Michael Heuer
as Michael L Heuer
More... over 11 years ago
Modified the updateSuperposition method to calculate also the RMSD and TMscores for each alignment block (subunit).
lafita
More... over 11 years ago
Changed the DisplayAFP, line 76, to color correctly the alignment (because if the alignment is not FatCat the unaligned residues were colored as well).
lafita
More... over 11 years ago
Merge branch 'minor' into 'master'
sbliven
as Spencer Bliven
More... over 11 years ago
Merge branch 'patch' into minor
sbliven
as Spencer Bliven
More... over 11 years ago
Merge pull request #258 from sbliven/minor
sbliven
as Spencer Bliven
More... over 11 years ago
Some #111
josemduarte
More... over 11 years ago
Excluding ECOD tests from compilation
sbliven
as Spencer Bliven
More... over 11 years ago
ECOD Improvements
sbliven
as Spencer Bliven
More... over 11 years ago
ECOD improvements
sbliven
as Spencer Bliven
More... over 11 years ago
Moving EcodInstallationTest to integrationtest package
sbliven
as Spencer Bliven
More... over 11 years ago
Fix multithreading bug in EcodInstallation
sbliven
as Spencer Bliven
More... over 11 years ago