Using convert_id() without REST_API

[w2felix]

can I use local files downloaded from the KEGG ftp to run convert_id functions?
I would like to let the package run on a machine without internet.
Best wishes
Felix

[noriakis]

Thank you always for your suggestion. This is indeed an important feature and I will definitely implement one for specifying the converting table without accessing REST API.

[noriakis]

Hi, in 88a401b, convert_id now has following arguments:

file: file for converting IDs
query_column: query column number
convert_column: convert column number
pref: prefix to be added (optional) to the query column

I think most of the cases can be covered including files from downloaded KEGG data, but let me hear your thought!

[w2felix]

sounds reasonable, will test it later