From c7dfbeaba774f943d546e09f3aceb8572b58d4c7 Mon Sep 17 00:00:00 2001 From: Shinya Suzuki Date: Wed, 19 Jun 2019 19:04:23 +0900 Subject: [PATCH] [BUG] Bug fix in parameter name --- scripts/deblur | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/scripts/deblur b/scripts/deblur index f5d9dcc..97c1966 100755 --- a/scripts/deblur +++ b/scripts/deblur @@ -333,7 +333,7 @@ def multiple_seq_alignment(seqs_fp, output_fp, threads_per_sample, @click.argument('seqs_fp', required=True, type=click.Path(resolve_path=True, readable=True, exists=True, file_okay=True)) -@click.argument('output_fp', required=True, +@click.argument('output_dir', required=True, type=click.Path(resolve_path=True, readable=True, exists=False, file_okay=True)) @click.option('--log-level', required=False, @@ -345,10 +345,10 @@ def multiple_seq_alignment(seqs_fp, output_fp, threads_per_sample, exists=False, dir_okay=True), default='deblur.log', show_default=True, help="log file name") -def remove_chimeras_denovo(seqs_fp, output_fp, log_level, log_file): +def remove_chimeras_denovo(seqs_fp, output_dir, log_level, log_file): """Remove chimeras de novo using UCHIME (VSEARCH implementation)""" start_log(level=log_level * 10, filename=log_file) - remove_chimeras_denovo_from_seqs(seqs_fp, output_fp) + remove_chimeras_denovo_from_seqs(seqs_fp, output_dir) # GENERATE BIOM TABLE COMMAND