Louis BECQUEY / biorseo

Go to a project
Toggle navigation Toggle navigation pinning
Louis BECQUEY
72060257 2 parents 2e2ec263 73734e9d

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

Expand all
Inline Side-by-side
Showing 2 changed files with 3 additions and 3 deletions
...@@ -549,7 +549,7 @@ class BiorseoInstance: ...@@ -549,7 +549,7 @@ class BiorseoInstance:
549 cmd = ["java", "-jar", jar3dexec, filename, ILmotifDir+"/all.txt", 549 cmd = ["java", "-jar", jar3dexec, filename, ILmotifDir+"/all.txt",
550 loop.header[1:]+".ILloop.csv", loop.header[1:]+".ILseq.csv"] 550 loop.header[1:]+".ILloop.csv", loop.header[1:]+".ILseq.csv"]
551 nowhere = open(devnull, 'w') 551 nowhere = open(devnull, 'w')
552 - logfile = open("log_of_the_run.sh", 'a') 552 + logfile = open(biorseoDir + "/log_of_the_run.sh", 'a')
553 logfile.write(' '.join(cmd)) 553 logfile.write(' '.join(cmd))
554 logfile.write("\n") 554 logfile.write("\n")
555 logfile.close() 555 logfile.close()
...@@ -789,7 +789,7 @@ class BiorseoInstance: ...@@ -789,7 +789,7 @@ class BiorseoInstance:
789 if c == 0: 789 if c == 0:
790 seq = l[:-1].upper() 790 seq = l[:-1].upper()
791 if is_canonical_nts(seq): 791 if is_canonical_nts(seq):
792 - header = header.replace('/', '_').replace('\'','').replace('(','').replace(')','') 792 + header = header.replace('/', '_').replace('\'','').replace('(','').replace(')','').replace(' ','_')
793 RNAcontainer.append(RNA(header, seq)) 793 RNAcontainer.append(RNA(header, seq))
794 if not path.isfile(self.outputf + header + ".fa"): 794 if not path.isfile(self.outputf + header + ".fa"):
795 rna = open(self.outputf + header + ".fa", "w") 795 rna = open(self.outputf + header + ".fa", "w")
...@@ -845,4 +845,4 @@ class BiorseoInstance: ...@@ -845,4 +845,4 @@ class BiorseoInstance:
845 self.joblist.append(Job(command=command, priority=priority, timeout=3600, how_many_in_parallel=3)) 845 self.joblist.append(Job(command=command, priority=priority, timeout=3600, how_many_in_parallel=3))
846 846
847 847
848 -BiorseoInstance(opts) 848 +BiorseoInstance(opts)
...\ No newline at end of file ...\ No newline at end of file
......
This diff is collapsed. Click to expand it.