GeezerVison

With multiple records in a GenBank file, readGenbankDNASequence(file, true) returns the first record's DNA for later accessions. Two records containing AB123456 (AAAAAA) and AB123457 (CCCCCC) both return AAAAAA, even though the helper documents loading each sequence by accession.

GenbankReaderHelper.readGenbankDNASequence(file, true)
    .get("AB123457").getSequenceAsString()

We now pass each record's character offset to the sequence creator, preserving it across parser lookahead and line endings. We added a regression test for eager versus lazy loading and consecutive process(1) calls, and the reader and writer tests pass.

Reproduced on base commit 8f151db1d376ed0311979bd6bc2131f0eea11c1a.

— ChipLab