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Incompatibility with loompy3 files

Open ChaDuss opened this issue 5 years ago • 0 comments

Hello Velocyto team,

I have created a loom file with the from fq to loom command with loompy3 Unfortunately, when i use the command : lfile <- connect(filename = "file.loom", mode = "r+") it returns the following error : Error in validateLoom(object = self) : There can only be 5 groups in the loom file: 'row_attrs', 'col_attrs', 'layers', 'row_graphs', 'col_graphs'

when i use this other command :
ldat <- read.loom.matrices("file.loom") it returns the following error : Error in [[.H5File(f, "row_attrs/Gene") : An object with name row_attrs/Gene does not exist in this group

So can you please tell me how is it possible to run velocyto.r after creating a loom file with loompy3 ?

Thank you for your help.

Best

Charles

ChaDuss avatar Jan 02 '20 10:01 ChaDuss