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