Mercurial > repos > jeremie > breakdancer_test

comparison breakdancer.py @ 26:acec6ba9884a draft

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Uploaded
author jeremie
date Tue, 01 Jul 2014 10:39:41 -0400
parents d05d0c77b021
children 463a9ed9655b
comparison
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25:d05d0c77b021 26:acec6ba9884a
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 print(binPath) 19 print("--"+binPath+"--")
20 print(str(binPath)) 20 # print(str(binPath))
21 binPath=binPath[:-1]
22 print("--"+binPath+"--")
23
21 bam2cfg = str(binPath)+"/bam2cfg.pl" 24 bam2cfg = str(binPath)+"/bam2cfg.pl"
22 breakdancer = binPath+"/breakdancer-max" 25 breakdancer = binPath+"/breakdancer-max"
23 breakdancer2vcf = binPath+"/breakdancer2vcf.py" 26 breakdancer2vcf = binPath+"/breakdancer2vcf.py"
24 27
25 28