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chore: move escpod align to rnabioco/eschalign - #431

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jayhesselberth wants to merge 1 commit into
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chore/remove-align
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chore/remove-align

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escpod align and the escapepod-align crate now live in https://github.com/rnabioco/eschalign as the standalone eschalign binary (history preserved, fresh 0.1.0). This removes them here.

  • Removes the crate, escpod align, Stage::Align, the escapepod-align/gpu feature leg, its tests, docs and benchmark.
  • escapepod-classify used escapepod_align::fasta::read_fasta; the reader moves to escapepod_signal::fasta (same behaviour, same tests, local FastaError).
  • Hard removal, no escpod align stub. The ESCAPEPOD_ALIGN_* switches no longer exist here (eschalign keeps them as deprecated aliases).

Checked on rna: fmt, clippy -D warnings, nextest 932/932, doctests, check --features gpu, --no-default-features --features cli build.

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