blst2tkns

name	blst2tkns
description	Use when turning EDirect-style BLAST XML alignment blocks into a token stream for downstream shell or xtract-based parsing.
disable-model-invocation	true
user-invocable	true

blst2tkns

EDirect shell wrapper over xtract that reads Seq-align-set_E XML and emits a compact label/value token stream for exon-alignment records.

Quick Start

• Command: blst2tkns
• Local executable: /home/vimalinx/miniforge3/envs/bio/bin/blst2tkns
• Environment prerequisite: add /home/vimalinx/miniforge3/envs/bio/bin to PATH so sibling tools such as xtract are resolvable

When To Use This Tool

• Convert Seq-align-set_E XML into a lighter token stream for shell pipelines.
• Pull out per-alignment values such as running index, score, start, stop, strand, and nested parts/* content.
• Bridge BLAST-derived XML that already lives in an EDirect / xtract workflow into simpler downstream parsing.
• Use this only for the expected XML shape; it is not a generic BLAST tabular, plain-text, or FASTA converter.

Common Patterns