machine god

machine goddess

26.04.6

What happened
The run failed at compile time (before any task ran), so progress shows 0 processes. The fatal line:

Missing process or function paramsSummaryLog(...)
 -- Check script '.../subworkflows/nf-core/utils_nfschema_plugin/main.nf' at line: 5

That subworkflow does include { paramsSummaryLog } from 'plugin/nf-schema'.

Now the mechanism, from the log and the source at the exact commit (0bad731) that ran:

The pipeline's own nextflow.config pins nf-schema@2.7.2, which does export paramsSummaryLog.
But the run log says: Downloading plugin nf-schema@3.0.0. So the unpinned latest (3.0.0) was loaded instead, and paramsSummaryLog was removed/changed in nf-schema 3.0.0 → "Missing process or function".
Why the pin was ignored
Look at the extra config attached to this launch (the Slack-notification block):

plugins {
  id 'nf-slack@0.5.0'
}

This plugins {} block in the launch/workspace config overrode the pipeline's plugins { id 'nf-schema@2.7.2' } block. Result: nf-schema lost its version pin and Nextflow resolved it to the latest release, 3.0.0, which is incompatible with this pipeline revision.

The fix
Add the pipeline's nf-schema pin back into the custom plugins block so both plugins are declared with versions:

plugins {
  id 'nf-slack@0.5.0'
  id 'nf-schema@2.7.2'
}

Keep the rest of the Slack config as-is. Relaunch with that change and the compile error will go away. (Longer term, the Slack plugins{} snippet lives in the workspace/launch config used across nf-core test runs — anywhere it's injected it needs to carry the matching nf-schema pin, or it will silently un-pin nf-schema for every pipeline it touches.)