Mercurial > repos > jeremie > breakdancer_test

comparison breakdancer.py @ 25:d05d0c77b021 draft

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Uploaded
author jeremie
date Tue, 01 Jul 2014 10:35:15 -0400
parents b4f641515363
children acec6ba9884a
comparison
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24:1e5783684391 25:d05d0c77b021
14 errorFile = tmp_dir+"/errorLog" 14 errorFile = tmp_dir+"/errorLog"
15 15
16 currentDir = os.path.dirname(os.path.abspath(__file__)) 16 currentDir = os.path.dirname(os.path.abspath(__file__))
17 17
18 binPath = os.environ['BREAKDANCER_BIN'] 18 binPath = os.environ['BREAKDANCER_BIN']
19 bam2cfg = binPath+"/bam2cfg.pl" 19 print(binPath)
20 print(str(binPath))
21 bam2cfg = str(binPath)+"/bam2cfg.pl"
20 breakdancer = binPath+"/breakdancer-max" 22 breakdancer = binPath+"/breakdancer-max"
21 breakdancer2vcf = binPath+"/breakdancer2vcf.py" 23 breakdancer2vcf = binPath+"/breakdancer2vcf.py"
22 24
23 25
24 def bam2cfg(args): 26 def bam2cfg(args):