From 057ecb2692be78219b92c8f3b48ec5555e81fa64 Mon Sep 17 00:00:00 2001 From: Diane Trout Date: Fri, 9 Jul 2010 00:08:12 +0000 Subject: [PATCH] Since srf2named_fastq detects what type of srf file I can remove the -c option that was forcing it to read CNF1 formatted srf files --- extra/ucsc_encode_submission/ucsc_gather.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/extra/ucsc_encode_submission/ucsc_gather.py b/extra/ucsc_encode_submission/ucsc_gather.py index f180f47..b21353a 100755 --- a/extra/ucsc_encode_submission/ucsc_gather.py +++ b/extra/ucsc_encode_submission/ucsc_gather.py @@ -518,7 +518,7 @@ def get_library_info(host, apidata, library_id): def condor_srf_to_fastq(srf_file, target_pathname, paired, flowcell=None, mid=None, force=False): - args = ['-c', srf_file, ] + args = [ srf_file, ] if paired: args.extend(['--left', target_pathname]) # this is ugly. I did it because I was pregenerating the target -- 2.30.2