Error: elementwise comparison failed; while running LL_net.cell_type_specific_TF_RE_binding(GRNdir,adata_RNA,adata_ATAC,genome, celltype,outdir,method)

[karamveerverma37]

Hi when I am running LingerGRN 1.92 I am getting error for "chr1_cell_population_TF_RE_binding.txt, no such file or directory". So as per earlier issues suggestions I am running LingerGRN 1.67 but gives the following error for cell type specific network construction. Please suggest how to solve any of this problem.

M100%|██████████| 23/23 [03:06<00:00, 8.14s/it]^[[A^M100%|██████████| 23/23 [03:06<00:00, 8.12s/it]
elementwise comparison failed; returning scalar instead, but in the future will perform elementwise comparison
Mean of empty slice.
invalid value encountered in divide
elementwise comparison failed; returning scalar instead, but in the future will perform elementwise comparison
Mean of empty slice.
^M 0%| | 0/23 [03:57<?, ?it/s]
Traceback (most recent call last):
File "/gpfs/Home/kmk7420/Multi_omics_GRN/LINGER/test.py", line 94, in
LL_net.cell_type_specific_TF_RE_binding(GRNdir,adata_RNA,adata_ATAC,genome,celltype,outdir,method)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/LingerGRN/LL_net.py", line 363, in cell_type_specific_TF_RE_binding
out=cell_type_specific_TF_RE_binding_chr(adata_RNA,adata_ATAC,GRNdir,chrN,genome,celltype,outdir,method)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/LingerGRN/LL_net.py", line 333, in cell_type_specific_TF_RE_binding_chr
S = np.log(RE_cluster+0.1) + np.log(mat+TFbinding+0.1) + np.log(TF_cluster+0.1)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/generic.py", line 2016, in array_ufunc
return arraylike.array_ufunc(self, ufunc, method, *inputs, **kwargs)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/arraylike.py", line 273, in array_ufunc
result = maybe_dispatch_ufunc_to_dunder_op(self, ufunc, method, *inputs, **kwargs)
File "pandas/_libs/ops_dispatch.pyx", line 113, in pandas._libs.ops_dispatch.maybe_dispatch_ufunc_to_dunder_op
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/ops/common.py", line 81, in new_method
return method(self, other)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/arraylike.py", line 190, in radd
return self._arith_method(other, roperator.radd)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/frame.py", line 7455, in _arith_method
self, other = ops.align_method_FRAME(self, other, axis, flex=True, level=None)
File "/gpfs/Home/kmk7420/.conda/envs/LINGER/lib/python3.10/site-packages/pandas/core/ops/init.py", line 294, in align_method_FRAME
raise ValueError(
ValueError: Unable to coerce to Series/DataFrame, dimension must be <= 2: (39428, 1, 1039)
srun: error: psh01com1hcom32: task 0: Exited with exit code 1