OHDSI / WebAPI

OHDSI WebAPI contains all OHDSI services that can be called from OHDSI applications
Apache License 2.0
130 stars 169 forks source link

Proposal: Profiles section - compatibility with bigints types #2370

Closed luisleon1894 closed 3 months ago

luisleon1894 commented 6 months ago

Hi! I am developer in IOMED (link: Home). At our company company, one of the services we use is Atlas + WebPAPI. Recently , we encountered a limitation in the Profiles section related to the observartion_period.

Explanation

We are aware that in the official DDL the observation_period_id column is of integer type. However in our environment we have set this column as bigint.

Upon reviewing the traceback we notice that the function used currently is getInt. Is there any chance to use the getLong instead?

Steps to reproduce behavior & Actual behavior

  1. Have a observation_period_id bigger than a Integer, for example:
observation_period_id person_id observation_period_start_date observation_period_end_date period_type_concept_id
389686681703353278 12319690674377349 2007-09-15 2023-06-16 44814724
  1. Search in Profiles the person_id

image

  1. See logs from web api
Caused by: org.postgresql.util.PSQLException: Bad value for type int : 389686681703353278
    at org.postgresql.jdbc.PgResultSet.toInt(PgResultSet.java:3218) ~[postgresql-42.3.7.jar!/:42.3.7]
    at org.postgresql.jdbc.PgResultSet.getInt(PgResultSet.java:2408) ~[postgresql-42.3.7.jar!/:42.3.7]
    at org.postgresql.jdbc.PgResultSet.getInt(PgResultSet.java:2836) ~[postgresql-42.3.7.jar!/:42.3.7]
    at org.ohdsi.webapi.service.PersonService$2.mapRow(PersonService.java:103) ~[classes/:?]
    at org.ohdsi.webapi.service.PersonService$2.mapRow(PersonService.java:95) ~[classes/:?]
    at org.springframework.jdbc.core.RowMapperResultSetExtractor.extractData(RowMapperResultSetExtractor.java:93) ~[spring-jdbc-4.3.25.RELEASE.jar!/:4.3.25.RELEASE]
    at org.springframework.jdbc.core.RowMapperResultSetExtractor.extractData(RowMapperResultSetExtractor.java:60) ~[spring-jdbc-4.3.25.RELEASE.jar!/:4.3.25.RELEASE]
    at org.springframework.jdbc.core.JdbcTemplate$1.doInPreparedStatement(JdbcTemplate.java:701) ~[spring-jdbc-4.3.25.RELEASE.jar!/:4.3.25.RELEASE]
    at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:638) ~[spring-jdbc-4.3.25.RELEASE.jar!/:4.3.25.RELEASE]
    ... 115 more

Using getLong function & Expected behavior

To check that the change solves the problem we have created a new fork and applied the proposed solution

image3

luisleon1894 commented 6 months ago

I have created a PR for this issue --> https://github.com/OHDSI/WebAPI/pull/2371

chrisknoll commented 6 months ago

I understand that this is a simple change, but I'm worried about violating the standard. This example could be used to further make 'compatible' changes to the schema, encouraging people to deviate from the published specs when it's possibly unknown what the impact might be. For example, in JavaScript, it's not actually possible to represent a full 64bit integer (It's like this as well with native R): some portion of the bits are used for intger, exponent ans sign of the number, so you get to a point where you get a value from a bigint in the db but it is interpreted differently in the UI.

Can you do a quick select count(*) from observation_period and let me know the number of records in that table? Seems strange that you actually have at least 389686681703353278 rows.