These are chat archives for dereneaton/ipyrad
set_params, such that we can now reorder them easily without having to rewrite the numbering (params are all linked to their keywords and their index is their order in the paramdict OrderedDict). I also have some simplification of the IPcluster client launcher. I'll work on merging these with all of your changes.
The dims of the array for each sample would be [nconsensreads] x [max_alleles] x [maxHs] and anything that didn't fit within the dims would be discarded.
[ ][ ][ ] = "A" [ ][ ][ ][ ] = "T" ... [ ][ ][ ][ ] = "C"
step7(). But for the CLI we might need to have a excludes line in the paramsfile... That's a pain.