Repository navigation
v2.6.7: fix MM tag string corruption in recall-tfs
⚠️ Reverse-strand MM/ML parsing bug — UPGRADE TO v2.9.0
Versions 2.6 – 2.8.2 had a parser bug that shifted m6A/m5C modification positions on reverse-aligned reads (~24 bp median), causing ns/nl/as/al/MA/AQ tags to be wrong on reverse reads. Forward reads unaffected. DAF with IUPAC (R/Y) encoding unaffected.
Upgrade: pip install --upgrade fiberhmm (v2.9.0+). See v2.9.0 release notes for details.
Critical bugfix on top of 2.6.6.
The slim IPC introduced in 2.6.6's `_make_payload` ran `list(val)` on every non-ML tag, including the MM tag (a string). `list('A+a,0,5,3;C+m,1,2,4')` returns `['A','+','a',',','0',...]` — a list of single chars — which then crashed `parse_mm_tag_query_positions.split(';')` on the worker side.
Affected: any `fiberhmm-recall-tfs` run on Hia5 PacBio / nanopore data (MM/ML path).
Not affected: DddB / DddA DAF runs (IUPAC R/Y path bypasses MM/ML entirely).
Fix
Only `list()` values that aren't already strings or bytes.
Install
```bash
pip install --upgrade fiberhmm
```
🤖 Generated with Claude Code