This directory contains general purpose, web oriented,
and computational biology oriented modules,  as well
as some less general stuff associated with the Intronerator
web site.  Initially this library was created by Jim
Kent from 1999 to 2001.  Since then other programmers have
also added to it.  Jim continues to make substantial
contributions.

With the exception of the gifcomp.c module, all 
modules here are free for all use - public, private,
or commercial. The gifcomp.c module contains code
originally distributed by CompuServe under a similar
"free for all" license.  However this uses the LZW
patented by UniSys, which UniSys started enforcing
several years after CompuServe released this module.
The last I heard UniSys did not require a license
for non-commercial purposes, but did require a
license for commercial purposes. This may change
in the future, though the patent is nearing it's
expiration date in any case.  Commercial users
are advised to either get a license for LZW, or
to switch from GIF to PNG.

	Name	Last modified	Size	Description
	Parent Directory		-
	aliType.c	07-Feb-2012 11:19	779
	aliType.o	14-May-2012 08:22	7.9K
	alpha/	12-Jun-2010 18:34	-
	annoColumn.c	26-Mar-2012 14:07	1.1K
	annoColumn.o	14-May-2012 08:22	11K
	annoFilter.c	25-Apr-2012 15:38	6.3K
	annoFilter.o	14-May-2012 08:22	19K
	annoFormatTab.c	10-Apr-2012 12:33	7.1K
	annoFormatTab.o	14-May-2012 08:22	28K
	annoFormatter.c	26-Mar-2012 14:07	3.2K
	annoFormatter.o	14-May-2012 08:22	18K
	annoGrator.c	25-Apr-2012 15:38	7.3K
	annoGrator.o	14-May-2012 08:22	25K
	annoGratorQuery.c	03-Apr-2012 10:59	6.0K
	annoGratorQuery.o	14-May-2012 08:22	25K
	annoRow.c	03-Apr-2012 10:59	2.8K
	annoRow.o	14-May-2012 08:22	19K
	annoStreamVcf.c	03-Apr-2012 10:59	4.6K
	annoStreamVcf.o	14-May-2012 08:22	26K
	annoStreamer.c	03-Apr-2012 10:59	3.3K
	annoStreamer.o	14-May-2012 08:22	18K
	apacheLog.c	07-Feb-2012 11:19	4.7K
	apacheLog.o	14-May-2012 08:22	18K
	asParse.c	25-Apr-2012 18:19	17K
	asParse.o	14-May-2012 08:22	44K
	axt.c	07-Feb-2012 11:19	27K
	axt.o	14-May-2012 08:22	75K
	axtAffine.c	07-Feb-2012 11:19	20K
	axtAffine.o	14-May-2012 08:22	25K
	bPlusTree.c	12-Jun-2010 18:34	14K
	bPlusTree.o	14-May-2012 08:22	31K
	bamFile.c	07-Feb-2012 11:19	21K
	bamFile.o	14-May-2012 08:22	47K
	base64.c	07-Feb-2012 11:19	2.8K
	base64.o	14-May-2012 08:22	12K
	basicBed.c	25-Apr-2012 15:38	47K
	basicBed.o	14-May-2012 08:22	103K
	bbiRead.c	16-Jun-2011 16:21	21K
	bbiRead.o	14-May-2012 08:22	51K
	bbiWrite.c	16-Apr-2012 14:54	17K
	bbiWrite.o	14-May-2012 08:22	53K
	bigBed.c	07-Feb-2012 11:19	7.5K
	bigBed.o	14-May-2012 08:22	30K
	binRange.c	07-Feb-2012 11:19	11K
	binRange.o	14-May-2012 08:22	31K
	bits.c	07-Feb-2012 11:19	5.6K
	bits.o	14-May-2012 08:22	23K
	blastOut.c	07-Feb-2012 11:19	25K
	blastOut.o	14-May-2012 08:22	59K
	blastParse.c	07-Feb-2012 11:19	22K
	blastParse.o	14-May-2012 08:22	59K
	boxClump.c	07-Feb-2012 11:19	7.7K
	boxClump.o	14-May-2012 08:22	22K
	boxLump.c	07-Feb-2012 11:19	4.1K
	boxLump.o	14-May-2012 08:22	11K
	bwgCreate.c	07-Feb-2012 11:19	34K
	bwgCreate.o	14-May-2012 08:22	71K
	bwgQuery.c	07-Feb-2012 11:19	11K
	bwgQuery.o	14-May-2012 08:22	32K
	bwgValsOnChrom.c	29-Mar-2011 14:20	5.9K
	bwgValsOnChrom.o	14-May-2012 08:22	19K
	cda.c	07-Feb-2012 11:19	11K
	cda.o	14-May-2012 08:22	35K
	chain.c	07-Feb-2012 11:19	17K
	chain.o	14-May-2012 08:22	48K
	chainBlock.c	07-Feb-2012 11:19	13K
	chainBlock.o	14-May-2012 08:22	27K
	chainConnect.c	07-Feb-2012 11:19	9.9K
	chainConnect.o	14-May-2012 08:22	27K
	chainToAxt.c	07-Feb-2012 11:19	3.0K
	chainToAxt.o	14-May-2012 08:22	15K
	chainToPsl.c	07-Feb-2012 11:19	3.0K
	chainToPsl.o	14-May-2012 08:22	14K
	cheapcgi.c	22-Mar-2012 18:00	58K
	cheapcgi.o	14-May-2012 08:22	155K
	cirTree.c	12-Jun-2010 18:34	17K
	cirTree.o	14-May-2012 08:22	41K
	codebias.c	07-Feb-2012 11:19	3.7K
	codebias.o	14-May-2012 08:22	14K
	colHash.c	07-Feb-2012 11:19	1.0K
	colHash.h	12-Jun-2010 18:34	1.0K
	colHash.o	14-May-2012 08:22	8.9K
	common.c	11-May-2012 07:31	76K
	common.o	14-May-2012 08:22	217K
	common.ps	12-Jun-2010 18:34	1.5K
	common.pss	12-Jun-2010 18:34	1.9K
	correlate.c	07-Feb-2012 11:19	1.7K
	correlate.o	14-May-2012 08:22	11K
	crTree.c	12-Jun-2010 18:34	14K
	crTree.o	14-May-2012 08:22	29K
	dgRange.c	07-Feb-2012 11:19	6.8K
	dgRange.o	14-May-2012 08:22	17K
	diGraph.c	07-Feb-2012 11:19	17K
	diGraph.c.97	12-Jun-2010 18:34	18K
	diGraph.o	14-May-2012 08:22	47K
	diff	12-Jul-2010 15:11	0
	diffs	14-Jun-2010 18:38	20K
	dlist.c	07-Feb-2012 11:19	6.9K
	dlist.o	14-May-2012 08:22	26K
	dnaLoad.c	07-Feb-2012 11:19	7.2K
	dnaLoad.o	14-May-2012 08:22	25K
	dnaMarkov.c	07-Feb-2012 11:19	6.1K
	dnaMarkov.o	14-May-2012 08:22	21K
	dnaMotif.c	07-Feb-2012 11:19	16K
	dnaMotif.o	14-May-2012 08:22	50K
	dnaMotif.pss	12-Jun-2010 18:34	1.3K
	dnaseq.c	07-Feb-2012 11:19	3.9K
	dnaseq.o	14-May-2012 08:22	20K
	dnautil.c	11-May-2012 06:21	24K
	dnautil.o	14-May-2012 08:22	61K
	dtdParse.c	07-Feb-2012 11:19	13K
	dtdParse.o	14-May-2012 08:22	37K
	dystring.c	07-Feb-2012 11:19	5.8K
	dystring.o	14-May-2012 08:22	24K
	emblParse.c	07-Feb-2012 11:19	3.7K
	emblParse.o	14-May-2012 08:22	16K
	errCatch.c	07-Feb-2012 11:19	3.4K
	errCatch.o	14-May-2012 08:22	17K
	errabort.c	07-Feb-2012 11:19	8.7K
	errabort.o	14-May-2012 08:22	27K
	fa.c	07-Feb-2012 11:19	15K
	fa.o	14-May-2012 08:22	50K
	ffAli.c	07-Feb-2012 11:19	3.6K
	ffAli.o	14-May-2012 08:22	14K
	ffScore.c	07-Feb-2012 11:19	4.6K
	ffScore.o	14-May-2012 08:22	19K
	filePath.c	07-Feb-2012 11:19	3.3K
	filePath.o	14-May-2012 08:22	12K
	fixColor.c	07-Feb-2012 11:19	352
	fixColor.o	14-May-2012 08:22	5.0K
	flydna.c	07-Feb-2012 11:19	2.8K
	flydna.o	14-May-2012 08:22	15K
	fof.c	07-Feb-2012 11:19	15K
	fof.o	14-May-2012 08:22	36K
	font/	14-May-2012 08:22	-
	foo	16-Apr-2012 20:10	28K
	fuzzyShow.c	07-Feb-2012 11:19	13K
	fuzzyShow.o	14-May-2012 08:22	34K
	gapCalc.c	07-Feb-2012 11:19	12K
	gapCalc.o	14-May-2012 08:22	30K
	gdf.c	07-Feb-2012 11:19	3.3K
	gdf.o	14-May-2012 08:22	15K
	gemfont.c	07-Feb-2012 11:19	3.7K
	gemfont.h	12-Jun-2010 18:34	2.6K
	gemfont.o	14-May-2012 08:22	16K
	genomeRangeTree.c	07-Feb-2012 11:19	7.1K
	genomeRangeTree.o	14-May-2012 08:22	25K
	gfNet.c	07-Feb-2012 11:19	443
	gfNet.o	14-May-2012 08:22	7.4K
	gff.c	07-Feb-2012 11:19	12K
	gff.o	14-May-2012 08:22	43K
	gff3.c	13-Jan-2011 18:18	31K
	gff3.o	14-May-2012 08:22	83K
	gfxPoly.c	07-Feb-2012 11:19	842
	gfxPoly.o	14-May-2012 08:22	8.3K
	gifLabel.c	07-Feb-2012 11:19	2.8K
	gifLabel.o	14-May-2012 08:22	13K
	gifcodes.h	12-Jun-2010 18:34	1.3K
	gifcomp.c	07-Feb-2012 11:19	6.8K
	gifdecomp.c	07-Feb-2012 11:19	12K
	gifread.c	07-Feb-2012 11:19	4.0K
	gifwrite.c	07-Feb-2012 11:19	2.8K
	hacTree.c	26-Sep-2011 22:48	11K
	hacTree.o	14-May-2012 08:22	24K
	hash.c	07-Feb-2012 11:19	18K
	hash.o	14-May-2012 08:22	54K
	histogram.c	07-Feb-2012 11:19	6.5K
	histogram.o	14-May-2012 08:22	14K
	hmmPfamParse.c	07-Feb-2012 11:19	5.1K
	hmmPfamParse.o	14-May-2012 08:22	23K
	hmmstats.c	07-Feb-2012 11:19	1.1K
	hmmstats.o	14-May-2012 08:22	9.5K
	htmlPage.c	07-Feb-2012 11:19	45K
	htmlPage.o	14-May-2012 08:22	116K
	htmshell.c	12-May-2012 04:28	17K
	htmshell.o	14-May-2012 08:22	49K
	https.c	15-Jul-2011 14:26	7.3K
	https.o	14-May-2012 08:22	63K
	i386/	12-Jun-2010 18:34	-
	i686/	12-Jun-2010 18:34	-
	intExp.c	07-Feb-2012 11:19	2.4K
	intExp.o	14-May-2012 08:22	13K
	intValTree.c	12-Jun-2010 18:34	2.5K
	intValTree.o	14-May-2012 08:22	14K
	internet.c	07-Feb-2012 11:19	3.5K
	internet.o	14-May-2012 08:22	17K
	itsa.c	12-Jun-2010 18:34	5.8K
	itsa.o	14-May-2012 08:22	16K
	iupac.c	11-May-2012 07:18	4.2K
	iupac.o	14-May-2012 08:22	17K
	jointalign.c	07-Feb-2012 11:19	1.9K
	jointalign.o	14-May-2012 08:22	11K
	jpegSize.c	07-Feb-2012 11:19	3.5K
	jpegSize.o	14-May-2012 08:22	11K
	keys.c	07-Feb-2012 11:19	12K
	keys.o	14-May-2012 08:22	32K
	knetUdc.c	07-Feb-2012 11:19	2.4K
	knetUdc.o	14-May-2012 08:22	12K
	kxTok.c	07-Feb-2012 11:19	5.2K
	kxTok.o	14-May-2012 08:22	14K
	lineFileOnBigBed.c	17-Apr-2012 15:03	3.5K
	lineFileOnBigBed.o	14-May-2012 08:22	17K
	linefile.c	25-Apr-2012 15:38	36K
	linefile.o	14-May-2012 08:22	88K
	localmem.c	07-Feb-2012 11:19	3.6K
	localmem.o	14-May-2012 08:22	16K
	log.c	07-Feb-2012 11:19	8.1K
	log.o	14-May-2012 08:22	27K
	maf.c	07-Feb-2012 11:19	23K
	maf.doc	12-Jun-2010 18:34	8.8K
	maf.o	14-May-2012 08:22	68K
	mafFromAxt.c	07-Feb-2012 11:19	2.1K
	mafFromAxt.o	14-May-2012 08:22	13K
	mafScore.c	07-Feb-2012 11:19	3.5K
	mafScore.o	14-May-2012 08:22	15K
	makefile	11-May-2012 06:33	3.1K
	md5.c	07-Feb-2012 11:19	7.2K
	md5.o	14-May-2012 08:22	16K
	memalloc.c	07-Feb-2012 11:19	13K
	memalloc.o	14-May-2012 08:22	35K
	memgfx.c	07-Feb-2012 11:19	27K
	memgfx.o	14-May-2012 08:22	84K
	metaWig.c	12-Jun-2010 18:34	4.7K
	metaWig.o	14-May-2012 08:22	21K
	mgCircle.c	07-Feb-2012 11:19	1.3K
	mgCircle.o	14-May-2012 08:22	12K
	mgPolygon.c	07-Feb-2012 11:19	8.4K
	mgPolygon.o	14-May-2012 08:22	16K
	mime.c	07-Feb-2012 11:19	17K
	mime.o	14-May-2012 08:22	34K
	net.c	07-Feb-2012 11:19	64K
	net.o	14-May-2012 08:22	146K
	nib.c	07-Feb-2012 11:19	12K
	nib.o	14-May-2012 08:22	40K
	nibTwo.c	07-Feb-2012 11:19	3.4K
	nibTwo.o	14-May-2012 08:22	16K
	nt4.c	07-Feb-2012 11:19	5.5K
	nt4.o	14-May-2012 08:22	22K
	numObscure.c	12-Jun-2010 18:34	2.5K
	numObscure.o	14-May-2012 08:22	11K
	obscure.c	17-Apr-2012 11:07	16K
	obscure.o	14-May-2012 08:22	55K
	oldGff.c	07-Feb-2012 11:19	16K
	oldGff.o	14-May-2012 08:22	37K
	oligoTm.c	07-Feb-2012 11:19	9.9K
	oligoTm.o	14-May-2012 08:22	16K
	options.c	26-Mar-2012 14:07	12K
	options.o	14-May-2012 08:22	32K
	osunix.c	07-Feb-2012 11:19	15K
	osunix.o	14-May-2012 08:22	50K
	oswin9x.c	07-Feb-2012 11:19	2.0K
	pairHmm.c	07-Feb-2012 11:19	9.0K
	pairHmm.o	14-May-2012 08:22	25K
	peakCluster.c	01-May-2011 11:27	7.4K
	peakCluster.o	14-May-2012 08:22	27K
	phyloTree.c	07-Feb-2012 11:19	8.8K
	phyloTree.o	14-May-2012 08:22	32K
	pipeline.c	02-Apr-2012 11:59	20K
	pipeline.o	14-May-2012 08:22	53K
	pngwrite.c	07-Feb-2012 11:19	4.1K
	pngwrite.o	14-May-2012 08:22	28K
	portimpl.c	07-Feb-2012 11:19	3.1K
	portimpl.h	12-Jun-2010 18:34	1.3K
	portimpl.o	14-May-2012 08:22	17K
	ppc/	12-Jun-2010 18:34	-
	psGfx.c	07-Feb-2012 11:19	9.7K
	psGfx.o	14-May-2012 08:22	45K
	psPoly.c	07-Feb-2012 11:19	837
	psPoly.o	14-May-2012 08:22	8.3K
	pscmGfx.c	07-Feb-2012 11:19	19K
	pscmGfx.o	14-May-2012 08:22	60K
	psl.as	12-Jun-2010 18:34	1.2K
	psl.c	07-Feb-2012 11:19	56K
	psl.o	14-May-2012 08:22	132K
	psl.sql	12-Jun-2010 18:34	1.7K
	pslGenoShow.c	07-Feb-2012 11:19	9.0K
	pslGenoShow.o	14-May-2012 08:22	29K
	pslShow.c	07-Feb-2012 11:19	7.9K
	pslShow.o	14-May-2012 08:22	27K
	pslTbl.c	12-Jun-2010 18:34	2.1K
	pslTbl.o	14-May-2012 08:22	17K
	pslTransMap.c	12-Jun-2010 18:34	10K
	pslTransMap.o	14-May-2012 08:22	20K
	pslWScore.as	12-Jun-2010 18:34	1.4K
	pslWScore.sql	12-Jun-2010 18:34	1.8K
	pthreadWrap.c	07-Feb-2012 11:19	2.5K
	pthreadWrap.o	14-May-2012 08:22	16K
	qa.c	07-Feb-2012 11:19	5.3K
	qa.o	14-May-2012 08:22	24K
	quickHeap.c	07-Feb-2012 11:19	5.7K
	quickHeap.o	14-May-2012 08:22	15K
	quotedP.c	07-Feb-2012 11:19	2.2K
	quotedP.o	14-May-2012 08:22	15K
	ra.c	07-Feb-2012 11:19	12K
	ra.o	14-May-2012 08:22	33K
	rainbow.c	10-Aug-2011 15:32	3.9K
	rainbow.o	14-May-2012 08:22	10K
	rangeTree.c	07-Feb-2012 11:19	9.2K
	rangeTree.o	14-May-2012 08:22	24K
	rbTree.c	07-Feb-2012 11:19	17K
	rbTree.o	14-May-2012 08:22	31K
	regexHelper.c	14-Mar-2011 12:29	2.8K
	regexHelper.o	14-May-2012 08:22	15K
	repMask.c	07-Feb-2012 11:19	4.6K
	repMask.o	14-May-2012 08:22	18K
	rle.c	07-Feb-2012 11:19	2.0K
	rle.o	14-May-2012 08:22	11K
	rnautil.c	12-Jun-2010 18:34	5.5K
	rnautil.o	14-May-2012 08:22	19K
	rqlEval.c	07-Feb-2012 11:19	8.1K
	rqlEval.o	14-May-2012 08:22	22K
	rqlParse.c	07-Feb-2012 11:19	17K
	rqlParse.o	14-May-2012 08:22	52K
	rudp.c	07-Feb-2012 11:19	16K
	rudp.o	14-May-2012 08:22	36K
	scoreWindow.c	07-Feb-2012 11:19	1.3K
	scoreWindow.o	14-May-2012 08:22	9.7K
	seg.c	07-Feb-2012 11:19	10K
	seg.o	14-May-2012 08:22	36K
	seqOut.c	07-Feb-2012 11:19	7.4K
	seqOut.o	14-May-2012 08:22	26K
	seqStats.c	12-Jun-2010 18:34	802
	seqStats.o	14-May-2012 08:22	7.8K
	servBrcMcw.c	07-Feb-2012 11:19	853
	servBrcMcw.o	14-May-2012 08:22	9.1K
	servCrunx.c	07-Feb-2012 11:19	1.0K
	servCrunx.o	14-May-2012 08:22	9.4K
	servcis.c	07-Feb-2012 11:19	869
	servcis.o	14-May-2012 08:22	9.1K
	servcl.c	07-Feb-2012 11:19	904
	servcl.o	14-May-2012 08:22	9.4K
	servmsII.c	07-Feb-2012 11:19	911
	servmsII.o	14-May-2012 08:22	9.3K
	servpws.c	07-Feb-2012 11:19	930
	servpws.o	14-May-2012 08:22	9.3K
	shaRes.c	07-Feb-2012 11:19	1.7K
	shaRes.o	14-May-2012 08:22	10K
	slog.c	07-Feb-2012 11:19	722
	slog.o	14-May-2012 08:22	7.8K
	snof.c	07-Feb-2012 11:19	6.9K
	snof.o	14-May-2012 08:22	22K
	snofmake.c	07-Feb-2012 11:19	5.4K
	snofmake.o	14-May-2012 08:22	18K
	snofsig.c	07-Feb-2012 11:19	550
	snofsig.o	14-May-2012 08:22	6.7K
	spaceSaver.c	07-Feb-2012 11:19	3.3K
	spaceSaver.o	14-May-2012 08:22	15K
	spacedColumn.c	07-Feb-2012 11:19	3.5K
	spacedColumn.o	14-May-2012 08:22	19K
	spacedSeed.c	07-Feb-2012 11:19	1.6K
	spacedSeed.o	14-May-2012 08:22	9.6K
	sparc/	12-Jun-2010 18:34	-
	splatAli.as	12-Jun-2010 18:34	443
	splatAli.c	07-Feb-2012 11:19	5.6K
	splatAli.o	14-May-2012 08:22	26K
	sqlList.c	11-May-2012 07:31	26K
	sqlList.o	14-May-2012 08:22	91K
	sqlNum.c	11-May-2012 07:31	6.5K
	sqlNum.o	14-May-2012 08:22	19K
	status	17-Apr-2012 21:33	21K
	subText.c	07-Feb-2012 11:19	2.9K
	subText.o	14-May-2012 08:22	14K
	sufa.c	12-Jun-2010 18:34	4.4K
	sufa.o	14-May-2012 08:22	14K
	sufx.c	12-Jun-2010 18:34	4.5K
	sufx.o	14-May-2012 08:22	14K
	synQueue.c	07-Feb-2012 11:19	2.5K
	synQueue.o	14-May-2012 08:22	14K
	tabRow.c	07-Feb-2012 11:19	5.8K
	tabRow.o	14-May-2012 08:22	21K
	tests/	17-Apr-2012 15:03	-
	textOut.c	07-Feb-2012 11:19	4.7K
	textOut.o	14-May-2012 08:22	16K
	tokenizer.c	07-Feb-2012 11:19	4.3K
	tokenizer.o	14-May-2012 08:22	20K
	trix.c	07-Feb-2012 11:19	17K
	trix.o	14-May-2012 08:22	45K
	twoBit.c	07-Feb-2012 11:19	25K
	twoBit.o	14-May-2012 08:22	69K
	udc.c	07-Feb-2012 11:19	47K
	udc.o	14-May-2012 08:22	102K
	vGfx.c	07-Feb-2012 11:19	1.1K
	vGfx.o	14-May-2012 08:22	11K
	vGfxPrivate.h	15-Jun-2010 21:25	1.9K
	vGif.c	07-Feb-2012 11:19	1.4K
	vPng.c	07-Feb-2012 11:19	1.7K
	vPng.o	14-May-2012 08:22	11K
	valgrind.suppress	28-Jul-2010 15:41	2.2K
	vcf.c	03-Apr-2012 10:59	36K
	vcf.o	14-May-2012 08:22	82K
	verbose.c	07-Feb-2012 11:19	3.2K
	verbose.o	14-May-2012 08:22	16K
	wildcmp.c	07-Feb-2012 11:19	2.3K
	wildcmp.o	14-May-2012 08:22	11K
	wormdna.c	07-Feb-2012 11:19	29K
	wormdna.o	14-May-2012 08:22	94K
	x86_64/	14-May-2012 08:22	-
	xAli.as	12-Jun-2010 18:34	1.3K
	xAli.c	07-Feb-2012 11:19	7.1K
	xAli.o	14-May-2012 08:22	27K
	xAli.sql	12-Jun-2010 18:34	1.8K
	xa.c	07-Feb-2012 11:19	5.3K
	xa.o	14-May-2012 08:22	22K
	xap.c	07-Feb-2012 11:19	4.7K
	xap.o	14-May-2012 08:22	21K
	xenshow.c	07-Feb-2012 11:19	1.6K
	xenshow.o	14-May-2012 08:22	9.7K
	xmlEscape.c	07-Feb-2012 11:19	1.4K
	xmlEscape.o	14-May-2012 08:22	13K
	xp.c	07-Feb-2012 11:19	12K
	xp.o	14-May-2012 08:22	32K
	zlibFace.c	12-Jun-2010 18:34	2.7K
	zlibFace.o	14-May-2012 08:22	13K