I have analyzed my metagenome data with phyloseq and used the R package biom to output a biom file containing my phyloseq normalized and filtered data. I need to run a statistical test in Qiime. My biom file generates an error that appears to be a column name problem for 'id'. As best I can determine, the source of the problem is that my biom file is formatted in the old version 1.4 json, and qiime requires version 2 hdf5 format. I have repeatedly tried the biom convert command recommended here, http://biom-format.org/documentation/biom_conversion.html. Can someone please help me with the correct conversion method to convert from the R biom file to a format accepted by qiime?