NAME

genbank_get_genomes_by_taxon.py - genbank get genomes by taxon

SYNOPSIS

genbank_get_genomes_by_taxon.py [-h] -o OUTDIRNAME [-t TAXON] [-v] [-f] [--noclobber] [-l LOGFILE] [--format FORMAT] --email EMAIL [--retries RETRIES] [--batchsize BATCHSIZE] [--timeout TIMEOUT]

OPTIONS

optional arguments:

-h, --help: show this help message and exit
-o OUTDIRNAME, --outdir OUTDIRNAME: Output directory (required)
-t TAXON, --taxon TAXON: NCBI taxonomy ID
-v, --verbose: Give verbose output
-f, --force: Force file overwriting
--noclobber: Don't nuke existing files
-l LOGFILE, --logfile LOGFILE: Logfile location
--format FORMAT: Output file format [gbk|fasta]
--email EMAIL: Email associated with NCBI queries (required)
--retries RETRIES: Number of Entrez retry attempts per request.
--batchsize BATCHSIZE: Entrez record return batch size
--timeout TIMEOUT: Timeout for URL connection (s)

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.

November 2019

genbank_get_genomes_by_taxon.py 0.2.9