reads only adjustments
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#	modified:   reads_only_forDatabase.py
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#	modified:   ../.DS_Store
#	modified:   ../.idea/workspace.xml
#	modified:   .DS_Store
#	modified:   exonCoordinateParser.pl
#	modified:   ../src/.DS_Store
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#	../.idea/libraries/jython_engine.xml
#	../EGG-INFO/
#	11.exonCoverage.tab
#	genecode_fromTable.txt
#	reads_only_locs2.py
#	reads_only_locs_java.py
#	refSeq_formatted.txt
#	refSeq_formatted2.txt
#	refSeq_formatted_withCoding.txt
#	refSeq_fromTable.txt
#	refSeq_fromTable_withCoding.txt
#	test.txt
#	../bamLocs.txt
#	../genetic_map_HapMapII_GRCh37/.DS_Store
#	../out/
#	../pysam/
#	../src/com/example/mutationfilter/CmToMbMap.class
#	../src/com/example/mutationfilter/CrossReference.class
#	../src/com/example/mutationfilter/ExonRead.class
#	../src/com/example/mutationfilter/FamilyDataGroup.class
#	../src/com/example/mutationfilter/Filter.class
#	../src/com/example/mutationfilter/FilterProgram.class
#	../src/com/example/mutationfilter/Flags.class
#	../src/com/example/mutationfilter/GenericFilter.class
#	../src/com/example/mutationfilter/HomozygousRegions$EndPoints.class
#	../src/com/example/mutationfilter/HomozygousRegions.class
#	../src/com/example/mutationfilter/InheritanceFilter.class
#	../src/com/example/mutationfilter/Mutation.class
#	../src/com/example/mutationfilter/MutationTypeFilter.class
#	../src/com/example/mutationfilter/QualityFilter.class
#	../src/com/example/mutationfilter/SnpFilter.class
#	../src/com/example/mutationfilter/TabFileReader.class
#	../src/com/example/mutationfilter/TabFileWriter.class