Workflow: Prepare user input

Fetched 2023-01-05 02:05:18 GMT

Prepare user input for NCBI-PGAP pipeline

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Inputs

ID Type Title Doc
fasta File
submol File
taxon_db File

Steps

ID Runs Label Doc
yaml2json
progs/yaml2json.cwl (CommandLineTool)
yaml2json
file2int_taxid
progs/file2int.cwl (ExpressionTool)
pgapx_yaml_ctl
progs/pgapx_yaml_ctl.cwl (CommandLineTool)
pgapx_yaml_ctl

Converts input JSON file to ASN.1 template

file2string_ltp
progs/file2string.cwl (ExpressionTool)
initial_cleanup
progs/asn_cleanup.cwl (CommandLineTool)
asn_cleanup
type_based_splitter
prepare_user_input2.cwl#type_based_splitter/aadf9631-3c46-44ce-8fee-9a354c48d4d5 (ExpressionTool)
file2string_input_asn_type
progs/file2string.cwl (ExpressionTool)

Outputs

ID Type Label Doc
taxid Integer
input_asn_type String
output_entries File (Optional)
locus_tag_prefix String
output_seq_submit File (Optional)
submol_block_json File
Permalink: https://w3id.org/cwl/view/git/5461e63dc4714bb81e1c9f58e436c8465107a199/prepare_user_input2.cwl