find_good_clusters_for_concat should have extra args

[josephwb]

It has become abundantly clear that a global conf.py does not work for every clade. Specifically:

smallest_cluster
cluster_prop

Presently find_good_clusters_for_concat.py just uses the values from conf.py. It is a bit of a pain to edit the latter while troubleshooting. It would be nice if the former used these values by default but could be overridden by optional args. This should be easy with the switch to argparse (#14).

[Cactusolo]

@josephwb I see two options are added:

usage: find_good_clusters_for_concat.py -d DIR -b DATABASE [-i]

#-d : define where is path to your cluster data generated by setup_clade.py
#-b the path leading to your plantDB

now the gif in the tutorial and here need to be updated.

thanks!

Miao

[josephwb]

Much of this has been resolved with bdedfe7 to have better defaults. It would still be nice to provide custom parameters for weirdo. I can do this if it proves to be useful.