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I'm trying to use mediKanren with the entire SemMedDB. I obtained the source db and created a .csv following the same format as indicated in code/sample_semmed.csv, at about 10GB. Everything seems to run fine but it's not creating any output. It seems that everything is kept in RAM until the end - which means the machine ran out of RAM and swap well before that. There doesn't seem to be anything wrong with printing to file on my system (macOS + Racket v7.3), only with flushing at these lines:
I'm trying to use
mediKanren
with the entireSemMedDB
. I obtained the source db and created a.csv
following the same format as indicated incode/sample_semmed.csv
, at about 10GB. Everything seems to run fine but it's not creating any output. It seems that everything is kept in RAM until the end - which means the machine ran out of RAM and swap well before that. There doesn't seem to be anything wrong with printing to file on my system (macOS + Racket v7.3), only with flushing at these lines:mediKanren/code/csv-semmed-ordered-unique-enum.rkt
Lines 42 to 43 in 8b1157b
I noticed the todo in
README.md
dated Nov 27, 2017:TODO: add SemMedDB files, along with terms of use information for SemMedDB.
What is the recommended solution for this problem?
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