"Warning:" for using "MAST" to find markers

[zhangsiyu1997]

When I use "MAST" in FindALLMarkers, I encounter an error. I don't know how to solve this problem. What should I do to fix it.

Seurat 4.2.1

nc_object.markers <- FindAllMarkers(nc_object, min.pct = 0.25,logfc.threshold = 0.25,test.use = "MAST")
Calculating cluster 0
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Calculating cluster 4
Calculating cluster 5
Calculating cluster 6
Warning: No DE genes identified
Warning: The following tests were not performed:
Warning: When testing 0 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 1 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 2 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 3 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 4 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 5 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method
Warning: When testing 6 versus all:
invalid name for slot of class “BayesGLMlike”: norm.method

[zhangsiyu1997]

The same when using "DESeq2"

nc_object.markers <- FindAllMarkers(nc_object, min.pct = 0.25,logfc.threshold = 0.25,test.use = "DESeq2")
Calculating cluster 0
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Calculating cluster 4
Calculating cluster 5
Calculating cluster 6
Warning: No DE genes identified
Warning: The following tests were not performed:
Warning: When testing 0 versus all:
None of the functions passed could be found
Warning: When testing 1 versus all:
None of the functions passed could be found
Warning: When testing 2 versus all:
None of the functions passed could be found
Warning: When testing 3 versus all:
None of the functions passed could be found
Warning: When testing 4 versus all:
None of the functions passed could be found
Warning: When testing 5 versus all:
None of the functions passed could be found
Warning: When testing 6 versus all:
None of the functions passed could be found

[zhangsiyu1997]

Hack to resolve RGLab/MAST#175 and #6489

[weixiao1991]

Norm.method pamameter is not valid. I have changed the R script for this. Please see https://github.com/weixiao1991/seurat.

[longmanz]

Hi,
I am closing this issue for now as @saketkc has kindly fixed this issue in #6489 .
Will reopen it if the issue persists.