Closed 1667857557 closed 2 months ago
window中运行时报错停止
> pbmc3k.final <- irGSEA.score(object = sc, assay = "RNA", + slot = "data", seeds = 123, ncores = 10, + min.cells = 3, min.feature = 0, + custom = F, geneset = NULL, msigdb = T, + species = "Homo sapiens", category = "C2", subcategory="CP:KEGG", geneid = "symbol", + method = c("JASMINE"), + aucell.MaxRank = NULL, ucell.MaxRank = NULL, + kcdf = 'Gaussian') Validating object structure Updating object slots Ensuring keys are in the proper structure Ensuring keys are in the proper structure Ensuring feature names don't have underscores or pipes Updating slots in RNA Validating object structure for Assay5 ‘RNA’ Object representation is consistent with the most current Seurat version Calculate JASMINE scores Warning messages: 1: Layer ‘data’ is empty 2: In BiocParallel::MulticoreParam(workers = ncores) : MulticoreParam() not supported on Windows, use SnowParam()
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一个可能的猜测是,sc是一个Assay5对象,但里面的lays只有counts,没有data,因此可以尝试把irGSEA.score中的参数从'data'改成'counts'。PS:新版本的irGSEA才支持Seurat V5。
window中运行时报错停止