| moving StringManipulationTestsHelper to org.biojava3.core.util |
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about 15 years ago
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| documenting why we use unix endline here |
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about 15 years ago
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| don't overwrite the name that is assigned by AtomCache (unless there is no name) |
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about 15 years ago
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| using the name that gets assigned by StructureTools.getSubRanges |
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about 15 years ago
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| getSubranges now assigns a new new to a Structure object |
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about 15 years ago
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| fixing a problem, that the name did not get written correctly in DB search results |
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about 15 years ago
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| just code template & class documentation |
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about 15 years ago
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| fixed different end line characters test failure; added String manipulation helper class (for further enhancements) |
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about 15 years ago
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| specifying all Date formats to either Locale.US or Locale.ENGLISH, to avoid Arabic months names induced problems |
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about 15 years ago
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| new util method in StructureUtils, preparation for XML serialization of SCOP and a new SCOPInstallation that is powered by web service requests to require minimum memory. Also a few other improvements |
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about 15 years ago
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| new utility method for duplicating and cloning a set of Calpha atoms. |
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about 15 years ago
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| specifying all Date formats to Locale.US |
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about 15 years ago
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| Referred to some static variables by full name. This prevents confusion when subclasses define a variable with the same name. |
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about 15 years ago
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| Modified the ParameterGUI to check both the getParameter and isParameter forms of getters, to better support booleans. |
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about 15 years ago
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| Added an OptimalCECPParameters class to control the OptimalCECPMain aligner. It currently has two parameters: tryAllCPs, and cpPoint. |
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about 15 years ago
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| Added another alignment algorithm for detecting circular permutations: OptimalCECPMain. It is extremely slow but thorough. This algorithm requires additional testing and may contain bugs. |
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about 15 years ago
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| Minor changes in CeMain and CeCPMain, including additional comments, better debugging info, and a different distance matrix (no longer doubled). Renamed CeMainTest to CeCPMainTest to better reflect its contents. |
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about 15 years ago
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| Added comments to JMatrixPanel to clarify the orientation of the matrix. |
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about 15 years ago
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| making getAlgorithm more usable in multi threaded environment, to avoid two threads using the same CeCalculator. |
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about 15 years ago
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| [maven-release-plugin] prepare for next development iteration |
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about 15 years ago
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| [maven-release-plugin] prepare release biojava-3.0.2 |
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about 15 years ago
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| and also needed to fix an assertion... |
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about 15 years ago
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| fixing index out of bounds error |
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about 15 years ago
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| bean-ifying access methods |
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about 15 years ago
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| moving alignment pre and post processing into public static methods |
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about 15 years ago
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| bean-ifying access methods |
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about 15 years ago
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| removing javadoc warning |
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about 15 years ago
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| removing javadoc warning |
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about 15 years ago
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| removing javadoc warning |
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about 15 years ago
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| improving javadoc |
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about 15 years ago
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