feat(annevo): add prediction, decoding, and scatter workflow - #33
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Wrap the ANNEVO container as atomic modules, reuse FXSPLIT -H for chromosome and weighted scatter, and add a standalone workflow.
The linter rejects script-level assignments mixed with includes. Replace sprintf with Groovy padLeft as well.
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Summary
Integrates ANNEVO as Nextflow modules, a reusable subworkflow, and a standalone workflow.
ANNEVO_PREDICTION(process_high+process_gpu) and CPU-onlyANNEVO_DECODINGANNEVO_ANNOTATIONone-step wrapper (not the scalable path)FXSPLIT -Hheader mode for whole-record chromosome scatternone,chromosome(default),weighted(--annevo_bins)--overlap_preddefaults on for Mammalia and ActinopteriUses
ghcr.io/hillerlab/annevo:latest. Bundled ANNEVO is non-commercial.nextflow run hillerlab/core \ -entry ANNEVO \ -c hillerlab.config \ --genome genome.fa \ --lineage Mammalia \ --output_dir results \ --annevo_scatter chromosome \ -profile slurm,apptainer,gpuTest plan
nextflow -previewfor scatternone,chromosome, andweightedghcr.io/hillerlab/annevoonce the container PR is published-profile gpu)