News and Announcements » – Makes TopiaryExplorer project file


This script makes a TopiaryExplorer project file (.tep) and a jnlp file with the data location preloaded.

WARNING: The jnlp file relies on an absolute path, if you move the .tep file, the generated jnlp will no longer work. However, you can still open the .tep file from your normal TopiaryExplorer install.

Usage: [options]

Input Arguments:



-i, --otu_table_fp
Path to the input OTU table (i.e., the output from
-m, --mapping_fp
The mapping filepath
-t, --tree_fp
Path to tree


-o, --output_dir
Path to the output directory
-p, --prefs_file_fp
Path to prefs file
-w, --web_flag
Web codebase jnlp flag [default: False]
-u, --url
Url path for the tep file. Note: when passing this flag, it will overwrite the supplied OTU table, Mapping and Tree files.


The result of this script is written to a .tep file and a .jnlp file, both with the name supplied by -o


Create .tep file and .jnlp file: -i otu_table.biom -m Fasting_Map.txt -t rep_set.tre