Data loading issue

[mda-hillmanlab]

When running pyclone-vi for the first time, I created a dataset based on the usage instructions (see attached file:
pyclone_test.txt). I then run the following command, adapted from the vigenette:
pyclone-vi fit -i pyclone_test.txt -o pyclone_test.h5 -c 40 -d beta-binomial -r 10

This produces the following output and errors. As far as I can tell, my data are formatted identically to the example file "tracerx.tsv", and things run fine when I use that file as input.

Removing 3 mutations with major copy number zero

Traceback (most recent call last):
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/bin/pyclone-vi", line 8, in
sys.exit(main())
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/click/core.py", line 1130, in call
return self.main(*args, **kwargs)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/click/core.py", line 1055, in main
rv = self.invoke(ctx)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/click/core.py", line 1657, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/click/core.py", line 1404, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/click/core.py", line 760, in invoke
return __callback(*args, **kwargs)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/pyclone_vi/cli.py", line 113, in fit
pyclone_vi.run.fit(**kwargs)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/pyclone_vi/run.py", line 29, in fit
log_p_data, mutations, samples = load_data(in_file, density, num_grid_points, precision=precision)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/pyclone_vi/data.py", line 11, in load_data
data, mutations, samples = load_pyclone_data(file_name)
File "/rsrch3/home/gyn_onc_rep_med/rthillman/.conda/envs/pyclone-vi/lib/python3.10/site-packages/pyclone_vi/data.py", line 78, in load_pyclone_data
cn, mu, log_pi = cn_priors[(
TypeError: unhashable type: 'Series'

[jbedo]

I encountered this, was due to multiple mutant ids as pointed out in #12.

[edceeyuchen]

I encountered this, was due to multiple mutant ids as pointed out in #12.

@jbedo ，Hello, jebdo, I met this problem, but I don't understand #12 answers? It's the problem about mutation_id col?

[jbedo]

Sorry this was a while ago so I don't quite remember, it might be that I encountered this error when mutation_id and sample_id didn't form a candidate key.

[edceeyuchen]

Sorry this was a while ago so I don't quite remember, it might be that I encountered this error when mutation_id and sample_id didn't form a candidate key.

Thank you very much for your prompt reply. I have solved this problem by modifying mutationid, but there is still confusion.