This PR allows for spike-ins to be disabled for single-cell data where the .sdrf file specifies 'none' for 'Comment[spike in]'.
We have examples of Smart-seq2 studies that do not specify spike-in inclusion, and need to be able to quantify without them.
There is pre-existing provision in irap_core.mk to disable spikes where spikein_fasta is set to an empty value. This PR sets that empty value with extra code in irap_sdrf2conf, and prevents it from being overridden by changing the assignment operator in irap_defs.mk.
This PR allows for spike-ins to be disabled for single-cell data where the .sdrf file specifies 'none' for 'Comment[spike in]'.
We have examples of Smart-seq2 studies that do not specify spike-in inclusion, and need to be able to quantify without them.
There is pre-existing provision in irap_core.mk to disable spikes where spikein_fasta is set to an empty value. This PR sets that empty value with extra code in irap_sdrf2conf, and prevents it from being overridden by changing the assignment operator in irap_defs.mk.