def add_run_analysis_job_opts(p):
p.add_argument('json_path',
type=_validate_analysis_job_json,
help="Path to analysis.json file")
add_sal_options(p)
add_common_options(p)
add_block_option(p)
return
def add_import_fasta_opts(p):
px = p.add_argument
px('fasta_path', type=validate_max_fasta_file_size, help="Path to Fasta File")
px('--name', required=True, type=str, help="Name of ReferenceSet")
px('--organism', required=True, type=str, help="Organism")
px('--ploidy', required=True, type=str, help="Ploidy")
add_block_option(p)
add_sal_options(p)
add_common_options(p)
return p
def add_import_fasta_opts(p):
px = p.add_argument
px('fasta_path', type=validate_file, help="Path to Fasta File")
px('--name', required=True, type=str, help="Name of ReferenceSet")
px('--organism', required=True, type=str, help="Organism")
px('--ploidy', required=True, type=str, help="Ploidy")
add_block_option(p)
add_sal_options(p)
add_common_options(p)
return p
def _wrapper(p):
add_common_options(p, default_level=default_log_level)
p.add_argument('rtc_path', type=str, help="Path to resolved tool contract")
return p
def add_run_analysis_job_opts(p):
p.add_argument('json_path', type=_validate_analysis_job_json, help="Path to analysis.json file")
add_sal_options(p)
add_common_options(p)
add_block_option(p)
return
def _wrapper(p):
add_common_options(p, default_level=default_log_level)
p.add_argument('rtc_path', type=str, help="Path to resolved tool contract")
return p
