From 44380c34c94123fecd2d24ff3b4eaf51f71974fc Mon Sep 17 00:00:00 2001 From: Susanna Kiwala Date: Tue, 23 Apr 2019 11:02:24 -0500 Subject: [PATCH] Revert "Remove argument that is no longer supported" This reverts commit 726f1d1aa7f7d42bc31adc45337e6d3091eaa8d0. --- lib/run_argument_parser.py | 5 +++++ 1 file changed, 5 insertions(+) diff --git a/lib/run_argument_parser.py b/lib/run_argument_parser.py index 34d704f5c..ee05f33c7 100644 --- a/lib/run_argument_parser.py +++ b/lib/run_argument_parser.py @@ -146,6 +146,11 @@ def __init__(self): ) PredictionRunArgumentParser.__init__(self, tool_name, input_file_help) + self.parser.add_argument( + "-i", "--additional-input-file-list", + help="yaml file of additional files to be used as inputs, e.g. cufflinks output files. " + + "For an example of this yaml file run `pvacseq config_files additional_input_file_list`." + ) self.parser.add_argument( "-p", "--phased-proximal-variants-vcf", help="A VCF with phased proximal variant information."