Louis BECQUEY / biorseo

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Louis BECQUEY
247acbf3 2 parents 3349ebbc a86eaa30

Merge branch 'master' of https://github.com/persalteas/biominserter

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Showing 1 changed file with 2 additions and 2 deletions
...@@ -1003,7 +1003,7 @@ for nt, number in ignored_nt_dict.items(): ...@@ -1003,7 +1003,7 @@ for nt, number in ignored_nt_dict.items():
1003 tot = len(RNAcontainer) 1003 tot = len(RNAcontainer)
1004 print("Loaded %d RNAs of length between 10 and 100. %d of them contain pseudoknots." % (tot, pk_counter)) 1004 print("Loaded %d RNAs of length between 10 and 100. %d of them contain pseudoknots." % (tot, pk_counter))
1005 1005
1006 -# #================= PREDICTION OF STRUCTURES =============================== 1006 +#================= PREDICTION OF STRUCTURES ===============================
1007 1007
1008 #define job list 1008 #define job list
1009 joblist = [] 1009 joblist = []
...@@ -1050,7 +1050,7 @@ for instance in RNAcontainer: ...@@ -1050,7 +1050,7 @@ for instance in RNAcontainer:
1050 joblist.append(Job(command=[biorseoDir+"/bin/biorseo", "-s", outputDir + basename + ".fa", "-d", descfolder, "-o", outputDir+"PK/" + basename + ".rawA", "--type", "A"], priority=4, timeout=3600, how_many_in_parallel=3, checkFunc=check_biorseoRawA, checkArgs=[basename, True])) 1050 joblist.append(Job(command=[biorseoDir+"/bin/biorseo", "-s", outputDir + basename + ".fa", "-d", descfolder, "-o", outputDir+"PK/" + basename + ".rawA", "--type", "A"], priority=4, timeout=3600, how_many_in_parallel=3, checkFunc=check_biorseoRawA, checkArgs=[basename, True]))
1051 joblist.append(Job(command=[biorseoDir+"/bin/biorseo", "-s", outputDir + basename + ".fa", "-d", descfolder, "-o", outputDir+"PK/" + basename + ".rawB", "--type", "B"], priority=4, timeout=3600, how_many_in_parallel=3, checkFunc=check_biorseoRawB, checkArgs=[basename, True])) 1051 joblist.append(Job(command=[biorseoDir+"/bin/biorseo", "-s", outputDir + basename + ".fa", "-d", descfolder, "-o", outputDir+"PK/" + basename + ".rawB", "--type", "B"], priority=4, timeout=3600, how_many_in_parallel=3, checkFunc=check_biorseoRawB, checkArgs=[basename, True]))
1052 # RNA-MoIP 1052 # RNA-MoIP
1053 - joblist.append(Job(function=launch_RNAMoIP, args=[instance.seq_, instance.header_, basename], priority=3, timeout=3600, checkFunc=check_RNAMoIP, checkArgs=[basename])) 1053 + # joblist.append(Job(function=launch_RNAMoIP, args=[instance.seq_, instance.header_, basename], priority=3, timeout=3600, checkFunc=check_RNAMoIP, checkArgs=[basename]))
1054 # Biokop 1054 # Biokop
1055 joblist.append(Job(command=[biorseoDir + "/../biokop/biokop", "-n1", "-i", outputDir + basename + ".fa", "-o", outputDir + basename + ".biok"], priority=5, timeout=15000, how_many_in_parallel=3, checkFunc=check_biokop, checkArgs=[basename])) 1055 joblist.append(Job(command=[biorseoDir + "/../biokop/biokop", "-n1", "-i", outputDir + basename + ".fa", "-o", outputDir + basename + ".biok"], priority=5, timeout=15000, how_many_in_parallel=3, checkFunc=check_biokop, checkArgs=[basename]))
1056 1056
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