The PVC holding chembl_36.db and protein_seq.zarr was never mounted into task
pods: WES's injected profile.config supplies no storage config (verified across
a full run's logs). Without /mnt/dreamdock-data, sqlite3 raises 'unable to open
database file' and every GET_FINAL_METABOLITES_STATIC task exits 1.
Restore storageClaimName/storageMountPath, and add a probe that reports what is
visible before opening sqlite so the failure names its own cause.
Source-only snapshot of the cluster branch for WES execution. Large
reference files (HPA/MANE/ensemble FASTA, model weights, ~597 MB) are
omitted: they are baked into the container images at build time and
mounted from the dreamdock-data PVC at runtime, and exceed the Gitea
request size limit.
Pipeline entry point is main.nf, which orchestrates the biotransformer,
conplex and tissue modules as a single workflow. Ligand inputs are read
from the eureka workspace; protein_zarr and chembl_db come from the
dreamdock-data PVC.
