Issue with bins in imported single resolution .cool data when trying to use getCompartments()

[meisterpeter]

I like OHCA (introduced to me by Martial).
I imported single resolution (50k) Hi-C matrix produced by HiC-Pro, converted into .cool format. Import goes well, bins are correctly imported.

`bins(hic)
GRanges object with 2009 ranges and 2 metadata columns:
                      seqnames            ranges strand |    bin_id     weight
                         <Rle>         <IRanges>  <Rle> | <numeric>  <numeric>
            I_1_50000        I           1-50000      * |         0 0.00979230
       I_50001_100000        I      50001-100000      * |         1 0.00891737
      I_100001_150000        I     100001-150000      * |         2 0.00703530
      I_150001_200000        I     150001-200000      * |         3 0.00997862
      I_200001_250000        I     200001-250000      * |         4 0.00947075
                  ...      ...               ...    ... .       ...        ...
  X_17500001_17550000        X 17500001-17550000      * |      2004 0.00902023
  X_17550001_17600000        X 17550001-17600000      * |      2005 0.01092203
  X_17600001_17650000        X 17600001-17650000      * |      2006 0.00740209
  X_17650001_17700000        X 17650001-17700000      * |      2007 0.00957678
  X_17700001_17718942        X 17700001-17718942      * |      2008        NaN`

However, when trying to call compartments with getCompartments(hic, genome=genome), even when defining the genome, the function returns
Erreur : BiocParallel errors 1 remote errors, element index: 1 6 unevaluated and other errors first remote error: Error in rhdf5::h5read(file, name = path, index = list(idx), ..., bit64conversion = "double"): Object '/resolutions/50000/bins' does not exist in this HDF5 file.

Is there something I can debug myself or are the bins not passed correctly?

[js2264]

Hi @meisterpeter, it sounds like HiCPro files converted into a cool file is treated as a mcool file (hence fetching for /resolutions/50000/bins rather than /bins). You could try to convert your cool file into mcool using cooler zoomify --balance ...., maybe this will solve your issue.
If you still have your cool file and can share it, I can look into this problem more directly.