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Update readme #82

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7 changes: 5 additions & 2 deletions README.md
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Expand Up @@ -84,11 +84,14 @@ you must clone this github repository to a directory, which here we assume is st
variable `$MIMIC_CODE_DIR`. After cloning, follow these instructions:

```
cd $MIMIC_CODE_DIR/concepts
cd $MIMIC_CODE_DIR/concepts_postgres
psql -d mimic -f postgres-functions.sql
bash postgres_make_concepts.sh
psql -d mimic -f postgres-make-concepts.sql
```

*Note:*
You may need to edit those 2 files and add `SET search_path TO mimiciii;`

Next, you'll need to build 3 additional materialized views necessary for this pipeline. To do this (again with
schema edit permission), navigate to `utils` and run `bash postgres_make_extended_concepts.sh` followed by
`psql -d mimic -f niv-durations.sql`.
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