From fea8054e9e5478dcb6eb88a2466bf8d3c5d44d7e Mon Sep 17 00:00:00 2001 From: weisburd Date: Thu, 24 Jun 2010 22:26:45 +0000 Subject: [PATCH] Updated long name for -l to --run-locally git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3631 348d0f76-0448-11de-a6fe-93d51630548a --- python/genomicAnnotatorScripts/GenerateTranscriptToInfo.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/python/genomicAnnotatorScripts/GenerateTranscriptToInfo.py b/python/genomicAnnotatorScripts/GenerateTranscriptToInfo.py index 898fd447d..6a6336a10 100755 --- a/python/genomicAnnotatorScripts/GenerateTranscriptToInfo.py +++ b/python/genomicAnnotatorScripts/GenerateTranscriptToInfo.py @@ -21,7 +21,7 @@ parser.add_option("-i", "--transcript-table", metavar="PATH", dest="transcript_t parser.add_option("-f", "--output-filename-prefix", metavar="PREFIX", dest="prefix", help="Output filename prefix (eg. refGene)") parser.add_option("-p", "--print", dest="justprint", action="store_true", default=False, help="Only print the commands to standard out, don't actually execute them yet.") parser.add_option("-e", "--execute", dest="execute", action="store_true", default=False, help="Executes the commands. This flag acts as a confirmation that you want to proceed with launching the processes.") -parser.add_option("-l", "--locally", dest="run_locally", action="store_true", default=False, help="Don't submit the commands to LSF. Run them sequentially on the current machine.") +parser.add_option("-l", "--run-locally", dest="run_locally", action="store_true", default=False, help="Don't submit the commands to LSF. Run them sequentially on the current machine.") parser.add_option("-R", "--reference", metavar="PATH", dest="reference", help="Specifies the path of the reference file to use.", default="/seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta") parser.add_option("-n", "--gene-name-columns", dest="gene_name_columns", metavar="GENE_NAMES", help="Comma-separated list of column names that contain gene names. This arg is passed through to the GenomicAnnotator. The GenomicAnnotator docs have more details on this.") parser.add_option("-q", "--queue", dest="queue", metavar="QUEUE", help="Specifies the LSF queue to use.", default="solexa")