4 ms·

Thanks Jeremy. I looked at Feature, and the underlying Arrow format, but couldn't figure out how to implement a row-id-label-to-row-index dictionary. The only "

by dalke 7y ago

Thanks Jeremy. I looked at Feature, and the underlying Arrow format, but couldn't figure out how to implement a row-id-label-to-row-index dictionary. The only "dictionary" I saw was for categorical data. I had the same issue with fstlib - how do I handle id lookups? Any pointers?

jmuhlich 7y ago
Sorry, I thought Feather supported random row access but it turns out it only supports random column access. For fst, I only played with the R interface, which would be called like this to retrieve row 12345 from the "fingerprint" column: read_fst("library.fst", columns="fingerprint", from=12345, to=12345) However fst didn't offer a raw/binary column datatype last I checked, which is frustrating. It has chr (string) but R can't have embedded NUL bytes in strings, so that was a dead-end for efficient storage of binary fingerprints for R. I didn't check if the underlying fstlib structures accept NULs in string columns.
- dalke 7y ago
  Thanks for confirming that. Looks like I'll need to look elsewhere for the next chemfp fingerprint file format.