name	fsa2xml
description	Use when converting FASTA sequence records into XML for downstream EDirect or XML-based sequence processing.
disable-model-invocation	true
user-invocable	true

fsa2xml

Wrap FASTA records in XML so they can be inspected or transformed with xtract.
Preserve sequence IDs, optional titles, sequence length, and sequence text in a structured form.
Bridge plain-text FASTA inputs into XML-centric EDirect workflows.

# 1) Convert FASTA records into XML
fsa2xml < sequences.fasta > sequences.xml

# 2) Convert and inspect record-level fields immediately
fsa2xml < sequences.fasta | xtract -pattern FASTA -element ID Title Length Seq

Start with one-record-per-header FASTA input.
Run fsa2xml via stdin redirection or as part of a pipe.
Confirm that the emitted XML contains the expected <FASTA> blocks and sequence metadata.
Hand the XML off to xtract, xml2json, or other XML-side tools only after that quick inspection.

This is a thin wrapper around transmute -f2x, so transmute must also be on PATH.
The current build does not expose a real --help or --version response.
The emitted XML is record-oriented: each FASTA entry becomes its own <FASTA> block rather than a single enclosing document.
Prefer stdin or pipes over relying on undocumented positional-file behavior.

来源信息