convert standard analysis pipelines to use bam format natively

[erange.git] / docs / runSNPAnalysis.sh

diff --git a/docs/runSNPAnalysis.sh b/docs/runSNPAnalysis.sh
index 103b576e73ac450c0af315645abfca41d7abbb40..51f2e4ccd8bc9ad166cd8f7a5609e6648413c929 100755 (executable)
--- a/docs/runSNPAnalysis.sh
+++ b/docs/runSNPAnalysis.sh
@@ -1,5 +1,7 @@
 #!/bin/bash
 #
+# This is no longer supported.  It is recommended that the pythin script of the same name be used instead.
+#
 # runSNPAnalysis.sh
 #
 # Usages: $ERANGEPATH/runSNPAnalysis.sh mouse rdsfile label rmaskdbfile dbsnpfile uniqStartMin totalRatio rpkmfile cachepages
@@ -59,4 +61,4 @@ python $ERANGEPATH/getNovelSNPs.py $1 $3.nr_dbsnp_geneinfo.txt $3.nr.final.txt
 
 # make bed file for displaying the snps on UCSC genome browser
 python $ERANGEPATH/makeSNPtrack.py $3.nr_snps.txt $3 $3.nr_snps.bed
-fi
\ No newline at end of file
+fi