fhcrc/taxtastic — Issue #48: check CONTENTS.json tree_file and phylo_model_file tags in v0.3.1 
Author: benjsmith
Created: 2011-11-16 23:01:10+00:00
State: open

I recently used taxit v0.3.1 to create a refpkg, then tried to run pplacer v1.1.alpha7 against it using the -c flag to specify the refpkg location. It produced an error that I hadn't specified a tree file, whereas there definitely was a tree file in the refpkg.

I compared the CONTENTS.json files of my refpkg and the one in the vaginal_16s.refpkg you guys made available. In my refpkg the "tree_file" tag was actually named "tree" and the "phylo_model_file" tag was named just "phylo_model". Appending the "_file" to both in my CONTENTS.json fixed the issue and pplacer worked using the -c flag. I'm therefore suggesting this tag naming discrepancy as something to check.