Add barcodes management option when performing basecalling

[sandratra-rab]

Add barcodes management/demultiplexing option when performing basecalling

[sandratra-rab]

Warning! We cannot directly obtain demultiplexed pod5, we need to 1) basecall 2) demultiplex 3) extract read IDs from demultiplexed reads 4) use pod5 tools to get demultiplexed pod5

We can only get demultiplexed UBAM and FASTQ files

STORAGE ISSUES ? It could be a bottleneck if we need to re-basecall right after minknow in order to store the demultiplexed pod5 files

Solutions:

• ask Nathalie to never mix project samples in the same barcoded sequencing run
• ask Nathalie to always launch basic basecalling for barcoded sequencing run (--> we would only need to launch dorado demux before storing the results in the corresponding projects)
• if no previous option is accepted: we will be forced to do basecalling + demux before storing the results in the corresponding projects

https://github.com/nanoporetech/dorado/issues/950