Mercurial > repos > bornea > saint_preprocessing

comparison SAINT_preprocessing_mq_pep.py @ 31:761e1ad2b130 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author bornea
date Tue, 26 Apr 2016 16:21:13 -0400
parents bd71998aec8d
children 05c5844e037b
comparison
equal deleted inserted replaced
30:e6e456d3ac14 31:761e1ad2b130
38 cmd = (r"Rscript "+ str(ins_path) +"pre_process_protein_name_set.R " + str(mq_file) + 38 cmd = (r"Rscript "+ str(ins_path) +"pre_process_protein_name_set.R " + str(mq_file) +
39 " " + str(names_path)) 39 " " + str(names_path))
40 os.system(cmd) 40 os.system(cmd)
41 else: 41 else:
42 cmd = (r"Rscript "+ str(ins_path) +"pre_process_protein_name_set.R " + str(mq_file) + 42 cmd = (r"Rscript "+ str(ins_path) +"pre_process_protein_name_set.R " + str(mq_file) +
43 " " + str(fasta_db) 43 " " + str(fasta_db))
44 os.system(cmd) 44 os.system(cmd)
45
45 46
46 infile = "./tukeys_output.txt" 47 infile = "./tukeys_output.txt"
47 # The MaxQuant "Samples Report" output. 48 # The MaxQuant "Samples Report" output.
48 prey = sys.argv[2] 49 prey = sys.argv[2]
49 # Y or N boolean from Galaxy. 50 # Y or N boolean from Galaxy.