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Error: ValueError: Expected 1D or 2D array, got 0D array instead

Open TingtingSsl2 opened this issue 2 years ago • 1 comments

Dear scrublet developer,

I'm using srublet to detect doublets in my scRNA-seq sample. I've successfully used it in other samples but one that causes the following error. I'm wondering if you could help to solve the problem.

reading from: /Volumes/BIOINFORMATICS/projects/rachel2022/output/02_cellranger_count_expectedCells/QTau-2/outs/filtered_feature_bc_matrix Processing QTau-2 Preprocessing... Simulating doublets... Embedding transcriptomes using PCA... Calculating doublet scores... Warning: failed to automatically identify doublet score threshold. Run call_doublets with user-specified threshold. Elapsed time: 22.9 seconds Traceback (most recent call last): File "scrublet_multi.py", line 31, in <module> np.savetxt(out_dir + sample + "_srublet.logic", predicted_doublets) File "<__array_function__ internals>", line 5, in savetxt File "/Users/tingtingzhao/anaconda3/lib/python3.8/site-packages/numpy/lib/npyio.py", line 1380, in savetxt raise ValueError( ValueError: Expected 1D or 2D array, got 0D array instead

Thank you!

TingtingSsl2 avatar Mar 30 '22 17:03 TingtingSsl2