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hubmapconsortium / sc-atac-seq-pipeline

ATAC-seq pipelines for HuBMAP
MIT License
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Failure in computing Jaccard similarity matrix when too many cells #41

Open mruffalo opened 3 years ago

mruffalo commented 3 years ago

Found by @jswelling:

Computing diffusion maps
Epoch: checking the inputs ...
Epoch: computing jaccard similarity matrix ...
Error in .local(x, y, ...) :
  Cholmod error 'problem too large' at file ../Core/cholmod_sparse.c, line 89
Calls: runDiffusionMaps ... calJaccard -> <Anonymous> -> <Anonymous> -> .local -> .Call
Execution halted

Figure out what to do about this, fix it, and release an updated pipeline version.