Zepeng (Phoenix) Mu

My problem was unrelated with this either, but is due to wrong openblas/lapack library that R is using after I made some changes to my conda environment.

It seems that you did not specify `-s 0` in `regtools`, which is required for regtools, as is shown in the message that you pasted above: ``` -s INT Strand...

Oh, I see that you specified `-s` above. But related to what you wrote above, the bam file may be a `positional argument`, so you should put it after `-o`....

Seems to be related issue on Mac as well:

I recently encountered a similar message: ```r Error in slot(object = object, name = "cells")[[layer]]

it also seems that in this case, "character" colnames were converted to "array" in `imputeMatrix()` step.

which one?

I see. I think you might see the error because this is extracted from the function, so you cannot just run it independently without getting the intermediate inputs. Here is...

How can I determine re-run by-and-only-by the presence of output file?.I remember this is the behavior when the first use snakemake.

Actually, `ancient` flag works for me