Assertion error at remove_superclones

[sowalsky]

I am receiving the following error (and this is the only error text I see):

Traceback (most recent call last):
  File "phylowgs/write_results.py", line 55, in <module>
    main()
  File "phylowgs/write_results.py", line 45, in main
    munger.remove_superclones()
  File "phylowgs/pwgsresults/result_munger.py", line 29, in remove_superclones
    assert len(structure[root_idx]) > 0
AssertionError

Unlike the other user who reported this error, my cellular prevalences are much higher. I ran PhyloWGS on 29 similar sets of samples, and this only occurred on 2 of them.

The only thing different about these two runs versus the other 27 is that the trees.zip is quite large. 11GB and 1.5GB, versus the next largest one that worked, 1.1GB (and most being in the 100-200MB range). Do you have any ideas how this fix this problem. My cnv_data.txt file has 85 entries, and my ssm_data.txt has 187 entries.

Thank you in advance.