From 200acb601c4a271cf3be7d8651e80b28f55309d2 Mon Sep 17 00:00:00 2001
From: Pjotr Prins
Date: Sat, 28 Mar 2026 08:59:07 +0100
Subject: GENECUP_DATADIR configures sqlite DB location

---
 README.md | 11 ++++++-----
 server.py |  4 +---
 2 files changed, 7 insertions(+), 8 deletions(-)

diff --git a/README.md b/README.md
index c8a18a8..2088fc9 100644
--- a/README.md
+++ b/README.md
@@ -41,13 +41,13 @@ Note that the build includes minipubmed and punkt for testing!
 
 - Following the instruction provided by NCBI: https://www.nlm.nih.gov/dataguide/edirect/archive.html
 
-Point environment variables to this dir.
+Point environment variables to this dir:
 
 ```
 env EDIRECT_PUBMED_MASTER=/export3/PubMed GEMINI_API_KEY="AIzaSy**" `guix build -L . genecup-gemini`/server.py --port 4201
 ```
 
-Even better you can run from a container:
+You can run from a proper container:
 
 ```
 guix shell -L . -C -N -F genecup-gemini coreutils -- env GEMINI_API_KEY="AIzaSy**" genecup --port 4201
@@ -56,9 +56,10 @@ guix shell -L . -C -N -F genecup-gemini coreutils -- env GEMINI_API_KEY="AIzaSy*
 Environment variables used:
 
 ```
-EDIRECT_PUBMED_MASTER
-GEMINI_API_KEY
-NLTK_DATA
+EDIRECT_PUBMED_MASTER: PubMed datadir
+GEMINI_API_KEY: LLM access key
+GENECUP_DATADIR: SQLITE DB directory
+NLTK_DATA: punkt directory
 TMPDIR
 ```
 
diff --git a/server.py b/server.py
index bd3bd57..b1a7404 100755
--- a/server.py
+++ b/server.py
@@ -70,9 +70,7 @@ def version():
 
 
 app=Flask(__name__)
-#datadir="/export/ratspub/"
-#datadir = "."
-datadir="./"
+datadir=os.environ.get("GENECUP_DATADIR", "./")
 
 app.config['SECRET_KEY'] = '#DtfrL98G5t1dC*4'
 app.config['SQLALCHEMY_DATABASE_URI'] = 'sqlite:///'+datadir+'userspub.sqlite'
-- 
cgit 1.4.1