Mercurial > repos > galaxyp > maxquant_mqpar

comparison mqwrapper.py @ 1:081720f095a9 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 2131f017e9303599ed672797ffd6e9b00ab1245d
author galaxyp
date Wed, 07 Aug 2019 10:49:44 -0400
parents a52165553917
children
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0:a52165553917 1:081720f095a9
54 fnames_with_ext = [(a if a.endswith(ftype) 54 fnames_with_ext = [(a if a.endswith(ftype)
55 else os.path.splitext(a)[0] + ftype) 55 else os.path.splitext(a)[0] + ftype)
56 for a in filenames] 56 for a in filenames]
57 57
58 for f, l in zip(files, fnames_with_ext): 58 for f, l in zip(files, fnames_with_ext):
59 os.link(f, l) 59 os.symlink(f, l)
60 60
61 # build mqpar.xml 61 # build mqpar.xml
62 mqpar_temp = os.path.join(os.getcwd(), 'mqpar.xml') 62 mqpar_temp = os.path.join(os.getcwd(), 'mqpar.xml')
63 mqpar_out = args['mqpar_out'] if args['mqpar_out'] != 'None' else mqpar_temp 63 mqpar_out = args['mqpar_out'] if args['mqpar_out'] != 'None' else mqpar_temp
64 mqpar_in = args['mqpar_in'] 64 mqpar_in = args['mqpar_in']