- File -> Import files
- add signal files (largest one is 62M)
/home/catch1/Desktop/Barski_ChIPseq/hg18/CTCF.vstep
/home/catch1/Desktop/Barski_ChIPseq/hg18/H2AZ.vstep
/home/catch1/Desktop/Barski_ChIPseq/hg18/H2BK5me1.vstep
/home/catch1/Desktop/Barski_ChIPseq/hg18/H3K27me1.vstep
/home/catch1/Desktop/Barski_ChIPseq/hg18/H3K27me2.vstep
/home/catch1/Desktop/Barski_ChIPseq/hg18/H3K27me3.vstep

- add position files
/home/catch1/Desktop/ENCODE regions/RefSeq_TSS_in_ENCODE_regions_hg17.bed

- click 'Convert and add to CATCH'

BUG: see console output below
...
53738
53739
53740
53741
Exception in thread "AWT-EventQueue-0" java.lang.OutOfMemoryError: GC overhead limit exceeded
at java.util.regex.Matcher.<init>(Matcher.java:207)
at java.util.regex.Pattern.matcher(Pattern.java:888)
at fileControllers.TrackUtils.readvarwiggletrack(TrackUtils.java:166)
at fileControllers.TrackUtils.linematcher(TrackUtils.java:123)
at fileControllers.TrackUtils.readwiggletrack(TrackUtils.java:84)
at fileControllers.ExtractWiggleLines.extractwigglelines(ExtractWiggleLines.java:85)
at fileControllers.ExtractWiggleLines.conversionPartOne(ExtractWiggleLines.java:49)
at fileControllers.ExtractWiggleLines.conversionstepone(ExtractWiggleLines.java:40)
at fileControllers.ExtractWiggleLines.conversionstepone(ExtractWiggleLines.java:26)
at fileManager.FileInterfaceGui.convert(FileInterfaceGui.java:368)