Commit 32ba683d authored by Penom Nom's avatar Penom Nom
Browse files

Clean component prefix for makecontig.

parent 70fd459f
......@@ -106,10 +106,10 @@ class MiSeqDiversity (NG6Workflow):
if fileExtension == fileFormat:
gunzip = self.add_component("GunZipFiles",[concat_read1_files,concat_read2_files])
makecontigs = self.add_component("MothurMakeContigs", kwargs={'read1_files':gunzip.fastq_R1,'read2_files':gunzip.fastq_R2,\
'sample_name': self.args["sample_name"],'maxambig':'0','maxlength':self.args["max_contigs_length"]}, component_prefix="test", parent=fastqilluminafilter)
'sample_name': self.args["sample_name"],'maxambig':'0','maxlength':self.args["max_contigs_length"]}, component_prefix="with_gz", parent=fastqilluminafilter)
else:
makecontigs = self.add_component("MothurMakeContigs", kwargs={'read1_files':concat_read1_files,'read2_files':concat_read2_files,\
'sample_name': self.args["sample_name"],'maxambig':'0','maxlength':self.args["max_contigs_length"]}, parent=fastqilluminafilter)
'sample_name': self.args["sample_name"],'maxambig':'0','maxlength':self.args["max_contigs_length"]}, component_prefix="without_gz", parent=fastqilluminafilter)
uniqueseqs = self.add_component("MothurUniqueSeqs", [makecontigs.good_fasta_files])
countseqs = self.add_component("MothurCountSeqs", [uniqueseqs.unique_names_files,makecontigs.good_groups_files])
pcrseqs = self.add_component("MothurPcrSeqs", kwargs={'fasta_files':self.args["reference_alignment"], 'forward_primer':self.args["forward_primer"],\
......
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