int main( int argc, char *argv[] )
{
optionInit(&argc, argv, optionSpecs);
obsolete = optionExists("obsolete");
if (! obsolete)
{
verbose(1,"ERROR: This loader is obsolete. Please use: 'wigEncode'\n");
verbose(1,"\t(use -obsolete flag to run this encoder despite it being obsolete)\n");
errAbort("ERROR: wigAsciiToBinary is obsolete, use 'wigEncode' instead");
}
if (argc < 2)
usage();
add_offset = optionLongLong("offset", 0);
binsize = optionLongLong("binsize", 1024);
dataSpan = optionLongLong("dataSpan", 1);
chrom = optionVal("chrom", NULL);
wibFile = optionVal("wibFile", NULL);
name = optionVal("name", NULL);
minVal = optionFloat("minVal", -1 * INFINITY);
maxVal = optionFloat("maxVal", INFINITY);
trimVals = optionExists("minVal") || optionExists("maxVal");
verbose(2, "options: -verbose, offset= %llu, binsize= %llu, dataSpan= %llu\n",
add_offset, binsize, dataSpan);
if (chrom)
{
verbose(2, "-chrom=%s\n", chrom);
}
if (wibFile)
{
verbose(2, "-wibFile=%s\n", wibFile);
}
if (name)
{
verbose(2, "-name=%s\n", name);
}
wigAsciiToBinary(argc, argv);
exit(0);
}
int main( int argc, char *argv[] )
/* Process command line */
{
optionInit(&argc, argv, optionSpecs);
lift = optionInt("lift", 0);
wibSizeLimit = optionLongLong("wibSizeLimit", 0);
allowOverlap = optionExists("allowOverlap");
noOverlapSpanData = optionExists("noOverlapSpanData");
if (wibSizeLimit < 0) /* protect against negative limits */
{
wibSizeLimit = 0;
verbose(1,"warning: negative wibSizeLimit specified, becomes zero\n");
}
if (argc < 4)
usage();
if (optionExists("noOverlap") && allowOverlap)
{
verbose(1,"wigEncode: can not specify -noOverlap and -allowOverlap together\n");
usage();
}
if (optionExists("noOverlap"))
{
verbose(1,"warning: -noOverlap is now the default, no need to specify that\n");
verbose(1,"\tsee also: -allowOverlap\n");
}
if (lift != 0)
verbose(2,"option lift=%d to lift all positions by %d\n", lift, lift);
if (wibSizeLimit > 0)
verbose(2,"option wibSizeLimit=%lld\n", wibSizeLimit);
if (noOverlapSpanData)
{
verbose(2,"option noOverlapSpanData on, will *not* allow overlapping spanned data\n" );
}
if (allowOverlap)
{
verbose(2,"option allowOverlap on, will allow overlapping data\n" );
noOverlap = FALSE;
}
verbose(2,"input ascii data file: %s\n", argv[1]);
verbose(2,"output .wig file: %s\n", argv[2]);
verbose(2,"output .wib file: %s\n", argv[3]);
wigEncode(argv[1], argv[2], argv[3]);
exit(0);
}
int main( int argc, char *argv[] )
{
optionInit(&argc, argv, optionSpecs);
obsolete = optionExists("obsolete");
if (! obsolete)
{
verbose(1,"ERROR: This loader is obsolete. Please use: 'wigEncode'\n");
verbose(1,"\t(use -obsolete flag to run this encoder despite it being obsolete)\n");
errAbort("ERROR: wigZoom is obsolete, use 'wigEncode' instead");
}
if (argc < 2)
usage();
dataSpan = optionLongLong("dataSpan", 1024);
verbose(2, "options: -verbose, dataSpan= %llu\n", dataSpan);
if (dataSpan < 2)
errAbort("ERROR: data span: %llu ! must be greater than one\n");
wigZoom(argc, argv);
exit(0);
}
