Runing too-many-cell's Docker 'gregoryschwartz/too-many-cells' occurred error on the middle of procedure about too-many-cells HOT 4 CLOSED

That just means that the cell barcode specified was not assigned a label. As a result, too-many-cells lets you know that the clumpiness measure can't be calculated, but that's optional. You should still see the output, just no clumpiness plot. You might want to change your docker mounts, though, as you did not mount . so you are outputting to ./out when you probably want ./input_matrix/out or something like that.

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from too-many-cells.

Hi @GregorySchwartz
The problem i posted before had solved yet.
But i had a question that the too-many-cell docker runing single cell data,size 32001x43111 matrix, have last for a few day and now it remained on runing status but stop. the picture showing below:
Is this norm? or abnormal.
Your advices would be appreciated.
Thanks

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I don't know the stats of your computer, but I would let it run to completion. If you want a faster result, I would recommend dimensionality reduction (as I could get millions of cells in the tree in an hour on my setup with fewer features).

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