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Lots of modifications to catch errors associated with converting bed12 useq files to bb.

biotelerock 2013-01-31

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Parent: [r49]

Child: [r51]

changed /trunk/Source/edu/utah/bass/InosinePredict.java
changed /trunk/Source/edu/utah/seq/useq/USeqUtilities.java
changed /trunk/Source/edu/utah/seq/useq/apps/Text2USeq.java
changed /trunk/Source/edu/utah/seq/useq/apps/USeq2UCSCBig.java
changed /trunk/Source/edu/utah/seq/useq/data/RegionScoreTextData.java
changed /trunk/Source/util/bio/annotation/ExonIntron.java
changed /trunk/Source/util/bio/annotation/ExportIntergenicRegions.java
changed /trunk/Source/util/bio/parsers/UCSCGeneLine.java
/trunk/Source/edu/utah/bass/InosinePredict.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/useq/USeqUtilities.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/useq/apps/Text2USeq.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/useq/apps/USeq2UCSCBig.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/useq/data/RegionScoreTextData.java Diff Switch to side-by-side view
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/trunk/Source/util/bio/annotation/ExonIntron.java Diff Switch to side-by-side view
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/trunk/Source/util/bio/annotation/ExportIntergenicRegions.java Diff Switch to side-by-side view
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/trunk/Source/util/bio/parsers/UCSCGeneLine.java Diff Switch to side-by-side view
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