In this PR, I am altering the current build-index.nf workflow to build salmon and kallisto indexes using both the spliced.txome.fa and the spliced_intron.txome.fa that were generated in #68. Additionally, I updated all of the index's to now use the ensembl-103 build and the salmon index to use the container with the most recent salmon release (also used in the alevin-quant/run-alevin.nf workflow).
One thing to note is that generating the index using the spliced_intron.txome.fa takes considerably more memory, and that has also now been adjusted so the workflow runs successfully.
In this PR, I am altering the current
build-index.nfworkflow to build salmon and kallisto indexes using both thespliced.txome.faand thespliced_intron.txome.fathat were generated in #68. Additionally, I updated all of the index's to now use the ensembl-103 build and the salmon index to use the container with the most recent salmon release (also used in thealevin-quant/run-alevin.nfworkflow).One thing to note is that generating the index using the
spliced_intron.txome.fatakes considerably more memory, and that has also now been adjusted so the workflow runs successfully.