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AlexsLemonade / scpca-nf

scpca-nf is the Nextflow workflow for processing Single-cell Pediatric Cancer Atlas Portal data
BSD 3-Clause "New" or "Revised" License
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Use new, slimmer sometimes, containers #762

Closed jashapiro closed 6 months ago

jashapiro commented 6 months ago

Closes #760

This PR adds the new scpcaTools containers which upgrade everything to R 4.4.0 and Bioconductor 3.19. I tried to use the slimmest container I could find for each task, and I think I got them all correct, but a bit more testing will be required to be sure that all code paths are tests (which is what #761 is for!)

Before merging these into main we will need to cut a release of scpcaTools to fix the docker versions, which are currently set to edge.