Download Sequence

download-sequence

Quick Start

• Command: download-sequence division...
• Local executable: /home/vimalinx/miniforge3/envs/bio/bin/download-sequence
• Full reference: See references/help.md

When To Use This Tool

• Mirror one or more NCBI biological sequence archive divisions into the current directory.
• Build a local batch archive of ASN.1 sequence files for offline processing.
• Use when you want division-wide dumps, not individual accession lookups.

Common Patterns

# 1) Download bacterial and plant ASN.1 sequence batches
download-sequence BCT PLN

# 2) Download viral and mammalian divisions into the current working directory
download-sequence VRL MAM

Recommended Workflow

1. Choose the archive division abbreviations you actually need.
2. Run the command from a dedicated download directory because files are written into the current working directory.
3. Re-run safely if needed; the script skips files that already exist.
4. Feed the downloaded ASN.1 archives into downstream EDirect or conversion utilities as needed.

Guardrails

• Despite the name, this command does not fetch a single accession; it downloads division-wide .aso.gz archive batches.
• The local script lists files under NCBI's ncbi-asn1 area and then downloads matching names, so network access is mandatory even for help-like exploration.
• Output lands in the current directory, so run it inside a clean target folder.
• Division filters are applied case-insensitively, but you still need valid archive abbreviations.