pulling the latest studies from the phylesystem shards
Already up to date.
/home/bredelings/Devel/OpenTree/phylesystem/shards
pulling the latest collections from the collections shards
/home/bredelings/Devel/OpenTree/collections/shards
Logs will show up in the /home/bredelings/Devel/OpenTree/synth-runs/v10.3-5/logs directory (in the event that something fails, check there).
cleaning previous outputs...
Building the supertree
cleaning the inputs...
creating the supertree...
annotating the supertree...
make extra...
running the assessments of the tree...
creating documentation of the outputs...