From 84b4c04f76df1ceeabf257741c87e498c81a073f Mon Sep 17 00:00:00 2001 From: Diane Trout Date: Wed, 27 Oct 2010 15:51:20 -0700 Subject: [PATCH] The WITH_SEQUENCE flag needs to be lower-case "true". --- htsworkflow/pipelines/retrieve_config.py | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/htsworkflow/pipelines/retrieve_config.py b/htsworkflow/pipelines/retrieve_config.py index 3a1a56a..3ba13fc 100644 --- a/htsworkflow/pipelines/retrieve_config.py +++ b/htsworkflow/pipelines/retrieve_config.py @@ -125,8 +125,7 @@ def format_gerald_config(options, flowcell_info, genome_map): config += ['SEQUENCE_FORMAT --fastq'] config += ['ELAND_SET_SIZE 20'] - config += ['WITH_SEQUENCE TRUE'] - config += ['12345678:WITH_SEQUENCE TRUE'] + config += ['12345678:WITH_SEQUENCE true'] analysis_suffix = eland_analysis_suffix[flowcell_info['paired_end']] sequence_suffix = sequence_analysis_suffix[flowcell_info['paired_end']] lane_groups = group_lane_parameters(flowcell_info) -- 2.30.2