error message not clear

[smirarab]

Please check path to "splits" definition.

In this error, it is not clear what is meant by splits file.

[michaelforthman]

Hi,

I have been experiencing this issue when trying to do discordance analysis on species tree. I am unfamiliar with docker, and more than likely am doing something wrong. Here is what I have done, after installing docker and running it:

docker run -v /Users/Forthman/Desktop/DiscoVista:/data esayyari/discovista discoVista.py [OPTIONS]

docker run -v /Users/Forthman/Desktop/DiscoVista:/data esayyari/discovista discoVista.py -m 0 -c /data/parameter/clade_definitions.txt -p /data/ -t 0.95 -o /data/results

Usage: discoVista.py [options]

Options: -h, --help show this help message and exit -a ANNOTATION, --annotation=ANNOTATION The annotation file -c CLADES, --clades=CLADES The path to the clades definition file -m MODE, --mode=MODE Specifies the analysis to perform. To summarize species tree use 0. To summarize gene trees use 1. For GC stat analysis use 2. For occupancy analysis use 3. For frequency analysis use 5. -p PATH, --path=PATH path to the gene directory or species tree -r ROOT, --rooting=ROOT The rooting file -s STYLE, --style=STYLE The color style set -t THRESH, --threshold=THRESH The bootstrap threshold -x MODELCOND, --modelCond=MODELCOND The model condition that the occupancy map will be plotted for -y NEWMODEL The new order for model conditions -w NEWORDER The new order for clades -k MISSING, --missing=MISSING The missing data handling flag. If this flag set to one, clades with partially missing taxa are considered as complete. -o LABEL, --output=LABEL name of the output folder for the relative frequency analysis. If you are using the docker it should start with '/data'. -g OUTG, --outgroup=OUTG Name of the outgroup for the hypothesis in relative frequency analysis specified in the annotation file, eg. Outgroup or Base. Please check the path to the splits definitions

In my DiscoVista directory, there is the directory data, which contains a directory called parameter (with the clade definitions file) and a directory for each of six species trees (in newick format).

I would appreciate any suggestions on how to get through this issue. Thanks!