MAJIQ deltapsi index error

[Wanru Lin]

Hello,

I met this error when I tried to run majiq deltapsi:

majiq deltapsi \

-psi1 MAJIQ_PsiCoverage/1A MAJIQ_PsiCoverage/1B MAJIQ_PsiCoverage/1C \

-psi2 MAJIQ_PsiCoverage/6A MAJIQ_PsiCoverage/6B MAJIQ_PsiCoverage/6C \

--names exp1 exp2 \

--min-experiments 3 --splicegraph MAJIQ_build/splicegraph.zarr

----------------------------

2025-07-25 14:37:16,021 (ERROR) - Exiting due to exception:
Traceback (most recent call last):

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/rna_majiq/_run/_run.py", line 147, in run

    self._run(args)

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/rna_majiq/_run/deltapsi.py", line 231, in run

    df = deltapsi_voila.to_dataframe(

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/rna_majiq/voila/DeltaPsiDataset.py", line 365, in to_dataframe

    "raw_psi_mean": self.groups.raw_psi_mean,

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/rna_majiq/core/MixinPsiInference.py", line 76, in raw_psi_mean

    return self.raw_posterior_mean

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/functools.py", line 981, in __get__

    val = self.func(instance)

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/rna_majiq/core/MixinPsiInference.py", line 60, in raw_posterior_mean

    return self.raw_alpha / (self.raw_alpha_plus_beta)

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/xarray/core/_typed_ops.py", line 258, in __truediv__

    return self._binary_op(other, operator.truediv)

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/xarray/core/dataarray.py", line 4721, in _binary_op

    self, other = align(self, other, join=align_type, copy=False)

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/xarray/core/alignment.py", line 882, in align

    aligner.align()

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/xarray/core/alignment.py", line 573, in align

    self.assert_no_index_conflict()

  File "/home/userX/anaconda3/envs/rna_seq/lib/python3.10/site-packages/xarray/core/alignment.py", line 318, in assert_no_index_conflict

    raise ValueError(

ValueError: cannot re-index or align objects with conflicting indexes found for the following coordinates: 'grp' (2 conflicting indexes)

Conflicting indexes may occur when

- they relate to different sets of coordinate and/or dimension names

- they don't have the same type

- they may be used to reindex data along common dimensions

------------------------------

I also got the same error when I was trying to run the workshop sample data from the MAJIQ website. 

I'd appreciate any suggestion about what is causing this and how to fix it!

Thank you very much in advance,

Wanru