Propinquity output documentation. The top-level docs are here.

The phylo_snapshot directory copies of the NexSON files for each tree that is a phylogenetic input.

Next step: Removing nodes from the phylogenetic inputs because of problems associated with the mapping of OTUs to the OTTaxonomy. See ../cleaned_phylo/index.html for details about that step.

Results:

concrete_rank_collection.json is a version of ../phylo_input/rank_collection.json with git SHAs filled in. Rerunning the pipeline with this collection should yield the same inputs.
collections_git_shas.txt holds a list of the SHAs for the HEADs of each collection shard of the phylesystem at the time the supertree operation was run. In the case of this run:
- 25661ce2d83b7e74c1fffee072c45d0f173f943b
git_shas.txt holds a list of the SHAs for the HEADs of each shard of the phylesystem at the time that the supertree operation was run. In the case of this run:
- c0926f843965a68e37c55812010d62220c351cfa
The 976 NexSON files stored are: