Propinquity output documentation. The top-level docs are here

When propinquity is run using the rebuild_from_latest.sh shell script, this directory will be populated with the log files from the build. These include the concanated log of otcetera outputs and:

Step	Standard output	Standard error
make clean	log-of-make-clean.txt	log-of-make-clean-err.txt
input cleaning	log-of-input-cleaning.txt	log-of-input-cleaning-err.txt
supertree	log-of-supertree.txt	log-of-supertree-err.txt
annotations	log-of-annotations.txt	log-of-annotations-err.txt
assessments	log-of-assessments.txt	log-of-assessments-err.txt
html generation	log-of-html.txt	log-of-html-err.txt
top level script output	complete_log.txt	complete_log_error.txt