Evaluate fails

[aldendirks]

AvP evaluate fails for an unknown reason. Any suggestions for how to fix this?

Command:

$DIR_AVP/avp evaluate -i output/musclegroups/ -t output/fasttree_tree_results.txt -o output -c $CONFIG_FILE

Output:

[+] Setting up
[+] Reconstructing constrainted topologies with FastTree
[x] 	100%
[+] Calculating stats with IQ-TREE
[x] 	100%
Traceback (most recent call last):
  File "/home/adirks/apps/avp/avp", line 7, in <module>
    main()
  File "/home/adirks/apps/avp/depot/interface.py", line 38, in main
    evaluate.main()
  File "/home/adirks/apps/avp/depot/evaluate.py", line 179, in main
    write_alt_results(alt_res_path, selected_genes, fastml, out_path)
  File "/home/adirks/apps/avp/depot/evaluate.py", line 224, in write_alt_results
    delta_l = float(tree_1[2])-float(tree_2[2])
                                     ~~~~~~^^^
IndexError: list index out of range

[GDKO]

Hi @aldendirks ,

Another user had a similar issue, you can check from this comment onwards for help. If you are still encountering issues let me know and we can troubleshoot together.

Cheers,
Georgios