---
name: "genbank_get_genomes_by_taxon.py"
section: "1"
platform: "linux"
package: "python3-pyani"
version: "0.2.13-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/genbank_get_genomes_by_taxon.py"
---

# genbank\_get\_genomes\_by\_taxon.py(1)

genbank get genomes by taxon

## 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.