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StamLab / stampipes Public

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feat: write bcl2fastq output directly to /flowcells/, eliminating 3TB cross-filesystem rsync#82

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jemma-nelson wants to merge 6 commits intomainStamLab/stampipes:mainfrom

feat/direct-flowcell-outputStamLab/stampipes:feat/direct-flowcell-outputCopy head branch name to clipboard

Conversation Commits6 (6)Checks Files changed

Open

feat: write bcl2fastq output directly to /flowcells/, eliminating 3TB cross-filesystem rsync#82
jemma-nelson wants to merge 6 commits intomainfrom
feat/direct-flowcell-output

Commits

Commits on Mar 26, 2026

fix: remove unused rel_path variable in link_nextseq.py
jemma-nelson
committed
refactor: rename link_nextseq.py, nest bcl output in bcl_output/ subdir
jemma-nelson
committed
fix: replace bcl-convert with bcl2fastq in comments (branch uses bcl2fastq)
jemma-nelson
committed
fix: update GUIDEseq index-swap paths to bcl_output/fastq/
jemma-nelson
committed

Commits on Mar 30, 2026

address PR comments
jemma-nelson
committed
make rename_fastq_files --dry-run clearer
jemma-nelson
committed

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