Start the pipeline from a later phase (organized project as opposed to flowcell)
Bugfix
Update create_charon_project_from_filesystem to support pre-organized projects (not flowcells)
Bugfix
pass additional parameters
Add script to convert weird Sthlm names to Illumina format
More changes! Moorrreegit diff start_pipeline_from_project.py
Move sequencing run logic & local job process tracking to individual engines
update naming
Clean up sample/flowcell-level launching code
todo/notes
Update create_charon_project_from_filesystem fn
De-comment function imported elsewhere & throw NotImplementedError (temp fix)
Refactor sample analysis code
Change charon updating from filesystem code to avoid deleting projects
More sample-level development
Add script to start analysis from flowcell
Remove raise from testing
sample-level hubbub
WIP parse Uppsala libprep from SampleSheet.csv