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Vocabulary Import warning message

Vocabulary Users
#1

Hi community,

I downloaded the most recent version of vocabulary from athena.ohdsi.org.

I use ETL-Synthea to import and got warning mesage below:

Warning messages:
1: In data.table::fread(file = paste0(vocabFileLoc, “/”, csv), stringsAsFactors = FALSE, :
Found and resolved improper quoting out-of-sample. First healed line 853636: <<2614984 “y set” tubing for peritoneal dialysis Device HCPCS HCPCS S A4719 20020101 20991231 >>. If the fields are not quoted (e.g. field separator does not appear within any field), try quote="" to avoid this warning.
2: In data.table::fread(file = paste0(vocabFileLoc, “/”, csv), stringsAsFactors = FALSE, :
Found and resolved improper quoting out-of-sample. First healed line 115727: <<44833612 “ventilation” pneumonit 4180186>>. If the fields are not quoted (e.g. field separator does not appear within any field), try quote="" to avoid this warning.

Is this ok for the import?
Thanks,
Ray Z.

#2

I think these are warnings and it says they were corrected. They are the result of double quotes within the concept name. You can can confirm this by selecting the concepts 614984 and 44833612.

#3

Thank you Don for the info.

Ray

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