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workflows/miseq_diversity/components/mothurmakecontigs.py

@@ -163,7 +163,7 @@ class MothurMakeContigs(Analysis):
                                     ,cmd_format='{EXE} {IN} {OUT}')
         makecontigs(inputs=[self.stability_files],includes=[self.read1_files, self.read2_files],outputs=[self.stdout,self.trim_fasta_files,self.scrap_fasta_files,self.groups_files,\
                                                                                             self.report_files])
-        screenseqs = ShellFunction(self.get_exec_path("mothur") + ' "#screen.seqs(fasta=$1,group=$2,maxambig='+self.maxambig+',maxlength='+self.maxlength+\
+        screenseqs = ShellFunction(self.get_exec_path("mothur") + ' "#screen.seqs(fasta=$1,group=$2,maxambig='+str(self.maxambig)+',maxlength='+str(self.maxlength)+\
                                    ',outputdir='+self.output_directory+'/,processors='+str(self.processors)+')" > $3',cmd_format='{EXE} {IN} {OUT}')
         screenseqs = MultiMap(screenseqs, inputs=[self.trim_fasta_files,self.groups_files],outputs=[self.stdout_screenseqs,self.good_fasta_files,self.bad_accnos_files,\
                                                                                                     self.good_groups_files])
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