Error in the clustering step of G1/2 cells in scRT.infer()

[annahyan]

Hi,

I am trying PERT inference on my data without providing the clone_id and I get the following error when running the scrt.infer function:

# run inference using PERT
... cn_s_with_scrt, supp_s_output, cn_g_with_scrt, supp_g_output = filtered_scrt.infer(level='pyro')
 20122010 trying with max k=20
 20122011 trying with k=2
 20122122 trying with k=3
 20122213 trying with k=4
 20122317 trying with k=5
 20122433 trying with k=6
 20122551 trying with k=7
 20122673 trying with k=8
 20122830 trying with k=9
 20123017 trying with k=10
 20123183 trying with k=11
 20123364 trying with k=12
 20123543 trying with k=13
 20123754 trying with k=14
 20123965 trying with k=15
 20124194 trying with k=16
 20124428 trying with k=17
 20124688 trying with k=18
 20124929 trying with k=19
 20125170 trying with k=20
 20125424 selected k=17
Traceback (most recent call last):
  File "<stdin>", line 2, in <module>
  File "/app/scdna_replication_tools/infer_scRT.py", line 122, in infer
    self.cn_s, supp_s_out_df, cn_g1_out, supp_g1_out_df = self.infer_pert_model()
  File "/app/scdna_replication_tools/infer_scRT.py", line 148, in infer_pert_model
    cell_col=self.cell_col, chr_col=self.chr_col, start_col=self.start_col)
  File "/app/scdna_replication_tools/assign_s_to_clones.py", line 73, in assign_s_to_clones
    copy_corrs = clone_correlations(clone_df, temp_cell_cn, col_name)
  File "/app/scdna_replication_tools/assign_s_to_clones.py", line 43, in clone_correlations
    r, pval = pearsonr(merged_df[col_name], clone_cn)
  File "/usr/local/lib/python3.7/site-packages/scipy/stats/stats.py", line 3906, in pearsonr
    raise ValueError('x and y must have length at least 2.')
ValueError: x and y must have length at least 2.

I'd appreciate your help.

Best