a44421a79fb36cc2036fe116b97ea3bc9590cd0c braney Fri Dec 2 09:34:39 2011 -0800 removed rcsid (#295) diff --git src/hg/synMap/runSlam.c src/hg/synMap/runSlam.c index f081fee..77a0bb6 100644 --- src/hg/synMap/runSlam.c +++ src/hg/synMap/runSlam.c @@ -8,31 +8,30 @@ #include "dystring.h" void usage() { errAbort("runSlam - runs the Slam program program given a reference chromosome\n" "and some aligned bits. Now does chdir().\n" "usage:\n\t" "runSlam <maxFaSize> <chromNibDir> <bitsNibDir> <resultsDir> <refPrefix> <alignPrefix> <chrN:1-10000.gff> <chrN:1-10000.gff> <chromPiece [chrN:1-10000]> <otherBits chrN[1-1000]....>\n"); } char *slamBin = "/cluster/home/sugnet/slam/"; char *repeatMaskBin = "/scratch/hg/RepeatMasker/"; char *outputRoot = "/tmp/slam/"; boolean runAvidFirst = TRUE; /* if true run avid first to order and orient fasta files. */ char *slamOpts = NULL; /* Options to pass to slam.pl */ int bpLimit = 400000; /* maximum nubmer of base pairs to allow in a fasta file. */ -static char const rcsid[] = "$Id: runSlam.c,v 1.5 2003/05/06 07:22:35 kate Exp $"; struct genomeBit /* Piece of the genome */ { struct genomeBit *next; char *fileName; char *chrom; int chromStart; int chromEnd; }; char *fileSuffixes[] = { ".fa", ".fa.cat", ".fa.masked", ".fa.masked.log", ".fa.out", ".fa.stderr", ".fa.tbl", ".fa.mout", ".fa.minfo"}; char *slamGetHost() /* Return host name. */