fork/cellxgene-gateway
1
0
Fork 0
mirror of https://github.com/Novartis/cellxgene-gateway.git synced 2026-09-15 12:47:59 +08:00
Code Issues Packages Projects Releases Wiki Activity

fixe bug in status.json

Browse Source
This commit is contained in:
Alok Saldanha
2025-11-08 11:16:56 -05:00
parent 8b4565e745
commit 4df58f9ceb
2 changed files with 44 additions and 38 deletions
Download Patch File Download Diff File Expand all files Collapse all files

20
cellxgene_gateway/gateway.py
View File

@@ -314,17 +314,23 @@ def do_GET_status():
@app.route("/cache_status.json", methods=["GET"])
def do_GET_status_json():
def map_entry(entry):
dataset = entry.key.h5ad_item.descriptor
annotation_file = entry.key.annotation_descriptor
return {
"dataset": dataset,
"annotation_file": annotation_file,
"launchtime": entry.launchtime,
"last_access": entry.timestamp,
"status": entry.status.name,
}
return json.dumps(
{
"launchtime": app.extensions.get("cellxgene_gateway", {}).get("launchtime"),
"entry_list": [
{
"dataset": entry.key.dataset,
"annotation_file": entry.key.annotation_file,
"launchtime": entry.launchtime,
"last_access": entry.timestamp,
"status": entry.status,
}
map_entry(entry)
for entry in cache.entry_list
],
}

62
start_uwsgi.sh
View File

@@ -53,36 +53,36 @@ export GATEWAY_ENABLE_BACKED_MODE=${GATEWAY_ENABLE_BACKED_MODE:-true}
# Check if uwsgi is installed
if ! command -v uwsgi &> /dev/null; then
echo "Error: uwsgi not found. Install with: pip install uwsgi"
exit 1
else
# Display configuration
echo "Starting Cellxgene Gateway with uWSGI..."
echo "Configuration:"
echo " Data source: ${CELLXGENE_DATA:-$CELLXGENE_BUCKET}"
echo " Binding to: $HOST:$PORT"
echo " Workers: $WORKERS"
echo " Threads: $THREADS"
echo " Timeout: ${TIMEOUT}s"
echo " Backed mode: ${GATEWAY_ENABLE_BACKED_MODE}"
echo ""
cd "$SCRIPT_DIR"
# Start uWSGI with optimized settings
# Additional options you can add via environment variables:
# - UWSGI_MAX_REQUESTS: Restart worker after N requests (prevents memory leaks)
uwsgi \
--http "$HOST:$PORT" \
--module cellxgene_gateway.gateway:app \
--workers "$WORKERS" \
--threads "$THREADS" \
--harakiri "$TIMEOUT" \
--master \
--enable-threads \
--single-interpreter \
--need-app \
--die-on-term \
--log-x-forwarded-for \
${UWSGI_MAX_REQUESTS:+--max-requests "$UWSGI_MAX_REQUESTS"} \
"$@"
fi
# Display configuration
echo "Starting Cellxgene Gateway with uWSGI..."
echo "Configuration:"
echo " Data source: ${CELLXGENE_DATA:-$CELLXGENE_BUCKET}"
echo " Binding to: $HOST:$PORT"
echo " Workers: $WORKERS"
echo " Threads: $THREADS"
echo " Timeout: ${TIMEOUT}s"
echo " Backed mode: ${GATEWAY_ENABLE_BACKED_MODE}"
echo ""
cd "$SCRIPT_DIR"
# Start uWSGI with optimized settings
# Additional options you can add via environment variables:
# - UWSGI_MAX_REQUESTS: Restart worker after N requests (prevents memory leaks)
exec uwsgi \
--http "$HOST:$PORT" \
--module cellxgene_gateway.gateway:app \
--workers "$WORKERS" \
--threads "$THREADS" \
--harakiri "$TIMEOUT" \
--master \
--enable-threads \
--single-interpreter \
--need-app \
--die-on-term \
--log-x-forwarded-for \
${UWSGI_MAX_REQUESTS:+--max-requests "$UWSGI_MAX_REQUESTS"} \
"$@"