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satijalab / sctransform

R package for modeling single cell UMI expression data using regularized negative binomial regression
GNU General Public License v3.0
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'node stack overflow' when using 'IntegrateData'! #119

Open amssljc opened 2 years ago

amssljc commented 2 years ago

When i run this code:

seurat.anchors <- FindIntegrationAnchors(object.list = seurat_list, anchor.features = features,nn.method = 'rann',reference = 10)
seurat.intergrated <- IntegrateData(anchorset = seurat.anchors)

The errors come up in this step:

Finding integration vector weights
Error: node stack overflow
Error during wrapup: node stack overflow
Error: no more error handlers available (recursive errors?); invoking 'abort' restart

Now I have loook several bugs about node stack overflow, it seems that 'Rfast' cause the error. I think there may exist some functions used in Seurat have been rewritten by Rfast, so it causes a false calling. Can you give me any suggestion to integrate my data?

amssljc commented 2 years ago

I have solved it by restart Rstudio and unloadNamespace. But i's not a long-term solution.