Viewing all changes in revision 1036.
- Committer: Ronald Haentjens Dekker
- Date: 2011-02-26 22:15:32 UTC
- Revision ID: ronald.dekker@huygensinstituut.knaw.nl-20110226221532-6rwu2b30inn5r0ve
[RHD]
- Fixed broken use case with transposition
- Cleaned up Sequence class
- Cleaned up Tranposition2 class
- Renamed IRow.rowToString() method to just toString()
- Cleaned up alignment unit tests; placed all the relevant tests in the same package and placed all the old tests in a separate package
- Fixed broken use case with transposition
- Cleaned up Sequence class
- Cleaned up Tranposition2 class
- Renamed IRow.rowToString() method to just toString()
- Cleaned up alignment unit tests; placed all the relevant tests in the same package and placed all the old tests in a separate package
- files added:
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/AlignmentTranspositionTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old
- files renamed:
- collatex/src/test/java/eu/interedition/collatex2/implementation/output/alignmenttable/AlignmentTableTranspositionTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/AlignmentTableTranspositionTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/output/alignmenttable/SpencerHoweTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/SpencerHoweTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/output/alignmenttable/TranspositionAlignmentTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/TranspositionAlignmentTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/containers/graph/VariantGraph2AlignerTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/VariantGraph2AlignerTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/containers/graph/VariantGraphIndexTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/VariantGraphIndexTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/containers/graph/VariantGraphSpencerHoweTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/VariantGraphSpencerHoweTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/AlignmentTableIndexTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/AlignmentTableIndexTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/AlignmentTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/AlignmentTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/AlternativeWitnessIndexTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/AlternativeWitnessIndexTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/BiGramIndexTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/BiGramIndexTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/BiGramTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/BiGramTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/IndexMatcherTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/IndexMatcherTest.java
- collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/VGAlignmentGapsTest.java => collatex/src/test/java/eu/interedition/collatex2/implementation/vg_alignment/old/VGAlignmentGapsTest.java
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