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#68 add param to set log level

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Alok Saldanha
2022-06-20 21:29:19 -04:00
parent 8d8a0a3483
commit 36c0a4d3d7
3 changed files with 4 additions and 2 deletions
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README.md
+1
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@@ -76,6 +76,7 @@ Optional environment variables:
* `GATEWAY_EXTRA_SCRIPTS` - JSON array of script paths, will be embedded into each page and forwarded with `--scripts` to cellxgene server * `GATEWAY_EXTRA_SCRIPTS` - JSON array of script paths, will be embedded into each page and forwarded with `--scripts` to cellxgene server
* `GATEWAY_ENABLE_ANNOTATIONS` - Set to `true` or to `1` to enable cellxgene annotations. * `GATEWAY_ENABLE_ANNOTATIONS` - Set to `true` or to `1` to enable cellxgene annotations.
* `GATEWAY_ENABLE_BACKED_MODE` - Set to `true` or to `1` to load AnnData in file-backed mode. This saves memory and speeds up launch time but may reduce overall performance. * `GATEWAY_ENABLE_BACKED_MODE` - Set to `true` or to `1` to load AnnData in file-backed mode. This saves memory and speeds up launch time but may reduce overall performance.
* `GATEWAY_LOG_LEVEL` - default is `INFO`. set to `DEBUG` to increase logging and to `WARNING` to decrease logging.
* `S3_ENABLE_LISTINGS_CACHE` - Set to `true` or to `1` to cache listings of S3 folders for performance. If the cache becomes stale, set `filecrawl.html?refresh=true` query parameter to refresh the cache. * `S3_ENABLE_LISTINGS_CACHE` - Set to `true` or to `1` to cache listings of S3 folders for performance. If the cache becomes stale, set `filecrawl.html?refresh=true` query parameter to refresh the cache.
If any of the following optional variables are set, [ProxyFix](https://werkzeug.palletsprojects.com/en/1.0.x/middleware/proxy_fix/) will be used. If any of the following optional variables are set, [ProxyFix](https://werkzeug.palletsprojects.com/en/1.0.x/middleware/proxy_fix/) will be used.
cellxgene_gateway/env.py
+2 -1
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@@ -9,7 +9,6 @@
import logging import logging
import os import os
import socket
cellxgene_location = os.environ.get("CELLXGENE_LOCATION") cellxgene_location = os.environ.get("CELLXGENE_LOCATION")
cellxgene_data = os.environ.get("CELLXGENE_DATA", "") cellxgene_data = os.environ.get("CELLXGENE_DATA", "")
@@ -33,6 +32,7 @@ enable_backed_mode = os.environ.get("GATEWAY_ENABLE_BACKED_MODE", "").lower() in
"true", "true",
"1", "1",
] ]
log_level = logging.getLevelName(os.environ.get("GATEWAY_LOG_LEVEL", "INFO"))
env_vars = { env_vars = {
"CELLXGENE_LOCATION": cellxgene_location, "CELLXGENE_LOCATION": cellxgene_location,
@@ -53,6 +53,7 @@ optional_env_vars = {
"GATEWAY_TTL": ttl, "GATEWAY_TTL": ttl,
"GATEWAY_ENABLE_ANNOTATIONS": enable_annotations, "GATEWAY_ENABLE_ANNOTATIONS": enable_annotations,
"GATEWAY_ENABLE_BACKED_MODE": enable_backed_mode, "GATEWAY_ENABLE_BACKED_MODE": enable_backed_mode,
"GATEWAY_LOG_LEVEL": log_level,
"CELLXGENE_ARGS": cellxgene_args, "CELLXGENE_ARGS": cellxgene_args,
"CELLXGENE_DATA": cellxgene_data, "CELLXGENE_DATA": cellxgene_data,
"PROXY_FIX_FOR": proxy_fix_for, "PROXY_FIX_FOR": proxy_fix_for,
cellxgene_gateway/gateway.py
+1 -1
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@@ -299,7 +299,7 @@ def launch():
def main(): def main():
logging.basicConfig( logging.basicConfig(
level=logging.INFO, level=env.log_level,
format="%(asctime)s:%(name)s:%(levelname)s:%(message)s", format="%(asctime)s:%(name)s:%(levelname)s:%(message)s",
) )
cellxgene_data = os.environ.get("CELLXGENE_DATA", None) cellxgene_data = os.environ.get("CELLXGENE_DATA", None)