GENBANK_GET_GENOMES_BY_TAXON.PY

NAME

genbank_get_genomes_by_taxon.py - genbank get genomes by taxon

DESCRIPTION

usage: 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]

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 Nilesh Patra for the Debian distribution and
can be used for any other usage of the program.