4.43. genbank_gather¶
Consolidate all genbank submission files for individual genomes into bulk submission packages grouped by submission pathway.
4.43.1. Inputs¶
4.43.1.1. Required inputs¶
genbank_gather.genbank_file_manifest
Array[String?] — Default: None
???
genbank_gather.genbank_submit_files
Array[File?] — Default: None
???
genbank_gather.package_genbank_submissions.account_name
String — Default: None
???
genbank_gather.package_genbank_submissions.authors_sbt
File — Default: None
???
genbank_gather.package_genbank_submissions.spuid_base
String — Default: None
???
genbank_gather.package_genbank_submissions.spuid_namespace
String — Default: None
???
4.43.1.2. Other inputs¶
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genbank_gather.package_genbank_submissions.cpus
Int — Default: 1
???
genbank_gather.package_genbank_submissions.docker
String — Default: "python:slim"
???
genbank_gather.package_genbank_submissions.mem_size
Int — Default: 2
???
4.43.2. Outputs¶
genbank_gather.ftp_submission_files
Array[File]
???
genbank_gather.num_dengue_clean
Int
???
genbank_gather.num_dengue_warnings
Int
???
genbank_gather.num_fluA_clean
Int
???
genbank_gather.num_fluA_warnings
Int
???
genbank_gather.num_fluB_clean
Int
???
genbank_gather.num_fluB_warnings
Int
???
genbank_gather.num_fluC_clean
Int
???
genbank_gather.num_fluC_warnings
Int
???
genbank_gather.num_noro_clean
Int
???
genbank_gather.num_noro_warnings
Int
???
genbank_gather.num_sc2_clean
Int
???
genbank_gather.num_sc2_warnings
Int
???
genbank_gather.num_sqns_clean
Int
???
genbank_gather.num_sqns_warnings
Int
???
genbank_gather.submit_dengue_clean_zip
File?
???
genbank_gather.submit_dengue_warnings_zip
File?
???
genbank_gather.submit_fluA_clean_zip
File?
???
genbank_gather.submit_fluA_warnings_zip
File?
???
genbank_gather.submit_fluB_clean_zip
File?
???
genbank_gather.submit_fluB_warnings_zip
File?
???
genbank_gather.submit_fluC_clean_zip
File?
???
genbank_gather.submit_fluC_warnings_zip
File?
???
genbank_gather.submit_noro_clean_zip
File?
???
genbank_gather.submit_noro_warnings_zip
File?
???
genbank_gather.submit_sc2_clean_zip
File?
???
genbank_gather.submit_sc2_warnings_zip
File?
???
genbank_gather.submit_sqns_clean_zip
File?
???
genbank_gather.submit_sqns_warnings_zip
File?
???
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