Commit 88fa2e34 authored by Maxime Manno's avatar Maxime Manno 🍜
Browse files

Update usearchdereplication.py : update ShellFunction usearch from production file

parent aa4a7a63
......@@ -61,5 +61,5 @@ class UsearchDereplication (Component):
self.add_output_file_list("stderr", "stderr", pattern='{basename_woext}.stderr', items=self.input_fasta)
def process(self):
dereplicate = ShellFunction( self.get_exec_path("usearch") + " -derep_" + self.method + " $1 -output $2 " + self.options + " 2> $3", cmd_format='{EXE} {IN} {OUT}' )
dereplicate = ShellFunction( self.get_exec_path("usearch") + " -derep_" + self.method + " $1 -fastaout $2 " + self.options + " 2> $3", cmd_format='{EXE} {IN} {OUT}' )
dereplicate = MultiMap(dereplicate, inputs=self.input_fasta, outputs=[self.output_files, self.stderr])
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