mcell_mc_split_filt followed by mcell_mc2d_force_knn : length mismatch errror

[nixstix]

Hi Tanay lab,

When running mcell_mc_split_filt function, followed immediately by mcell_mc2d_force_knn, we get the following error:

Error in mc2d_comp_cell_coord(mc_id, graph_id, mgraph, mc_xy, symmetrize = symmetrize) :
MC-ERR: Length mismatch in number of projected MC and overal mc

Are we missing a step in the pipeline to be able to correct the mismatch?

Thanks for any help, and thanks for the package!

[akhiadber]

please paste the output of length(mc@colors) and max(mc@mc), assuming your metacell object is named 'mc'. Assuming this is the mismatch, we'll look into why this mismatch happens when running mcell_mc_split_filt.

[nixstix]

Hi, thanks for the quick response! Indeed this was the mismatch. The output length(mc@colors) was 1, and max(mc@mc) was 22. When I populated mc@colors with 22 colors (e.g. using mc_colorize_default it worked.

[akhiadber]

We'll still look into why the length of mc@colors was 1 when running the split function, assuming you didn't set this on purpose. For now coloring in some manner is the workaround

[nixstix]

We did not set anything regarding the colours. If you need a reproducible example, I can email you a subset of data and the code we are using.