Skip to content

Add Icechunk credentials to configurations #71

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
JustinElms merged 6 commits into from
Apr 4, 2026
Merged

Add Icechunk credentials to configurations #71

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
6 commits
Select commit Hold shift + click to select a range
8b018ce
add configuration for icechunk s3 storage
JustinElms Feb 26, 2026
8ad1352
change giops_day quantum
JustinElms Mar 2, 2026
c3f9d7d
clean up ic configs
JustinElms Mar 13, 2026
5fb9f6a
set local repo path in configs
JustinElms Mar 13, 2026
ced58d4
update test directories
JustinElms Mar 17, 2026
7246bd9
update other test config paths
JustinElms Mar 17, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
70 changes: 35 additions & 35 deletions datasetconfig.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,10 +3,10 @@
"group": "GIOPS Forecast",
"subgroup": "3D",
"envtype": ["ocean", "ice"],
"url": "/data/db/giops-fc3dll-10day.sqlite3",
"url": "icechunk",
"bathymetry_file_url": "/data/grids/ecc/giops/bathy_meter_giops_latlon_reformatted-ONav.nc",
"name": "GIOPS 10 Day Daily Mean Forecast 3D - LatLon",
"quantum": "day",
"quantum": "hour",
"type": "forecast",
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Mercator",
Expand Down Expand Up @@ -38,7 +38,7 @@
"group": "GIOPS Forecast",
"subgroup": "2D",
"envtype": ["ocean", "ice"],
"url": "/data/db/giops-fc2dll-10day.sqlite3",
"url": "icechunk",
"name": "GIOPS 10 Day 3 Hour Mean Forecast Surface - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -87,7 +87,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Mercator",
"url": "/data/db/riops-fc2dll.sqlite3",
"url": "icechunk",
"attribution": "Environment and Climate Change Canada",
"lat_var_key": "latitude",
"lon_var_key": "longitude",
Expand Down Expand Up @@ -119,7 +119,7 @@
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"bathymetry_file_url": "/data/grids/ecc/riops/bathy_meter_riops_ps5km_reformatted-ONav.nc",
"url": "/data/db/riops-fc3dps.sqlite3",
"url": "icechunk",
"grid_angle_file_url": "/data/grids/ecc/riops/grid_angle_riops_ps5km60n.nc",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "latitude",
Expand Down Expand Up @@ -158,7 +158,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/riops-fc2dps.sqlite3",
"url": "icechunk",
"grid_angle_file_url": "/data/grids/ecc/riops/grid_angle_riops_ps5km60n.nc",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "latitude",
Expand Down Expand Up @@ -192,7 +192,7 @@
"group": "CIOPS Forecast",
"subgroup": "East",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-east_fc_3dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast East 3D - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -226,7 +226,7 @@
"group": "CIOPS Forecast",
"subgroup": "East",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-east_fc_2dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast East Surface - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -268,7 +268,7 @@
"group": "CIOPS Forecast",
"subgroup": "West",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-west_fc_3dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast West 3D - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -302,7 +302,7 @@
"group": "CIOPS Forecast",
"subgroup": "West",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-west_fc_2dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast West Surface - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -344,7 +344,7 @@
"group": "CIOPS Forecast",
"subgroup": "Salish Sea",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-salish_fc_3dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast Salish Sea 3D - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -378,7 +378,7 @@
"group": "CIOPS Forecast",
"subgroup": "Salish Sea",
"envtype": ["ocean", "ice"],
"url": "/data/db/ciops-salish_fc_2dll.sqlite3",
"url": "icechunk",
"name": "CIOPS Forecast Salish Sea Surface - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -426,7 +426,7 @@
"type": "forecast",
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/caps-fc3drp.sqlite3",
"url": "icechunk",
"grid_angle_file_url": "/data/grids/ecc/caps/grid_angle_caps_rp.nc",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "latitude",
Expand All @@ -450,7 +450,7 @@
"type": "forecast",
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/caps-fc2drp.sqlite3",
"url": "icechunk",
"grid_angle_file_url": "/data/grids/ecc/caps/grid_angle_caps_rp.nc",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "latitude",
Expand Down Expand Up @@ -489,7 +489,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/canso100.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -516,7 +516,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/canso500.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -543,7 +543,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/fundy500.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -570,7 +570,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/kit100.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -597,7 +597,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/kit500.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -624,7 +624,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/sf30.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -651,7 +651,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/sj100.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -678,7 +678,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/sss150.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -705,7 +705,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/stle200.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -732,7 +732,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/stle500.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand All @@ -759,7 +759,7 @@
"cache": 6,
"time_dim_units": "seconds since 1950-01-01 00:00:00",
"model_class": "Nemo",
"url": "/data/db/vh20.sqlite3",
"url": "icechunk",
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
"lon_var_key": "lon",
Expand Down Expand Up @@ -894,7 +894,7 @@
"quantum": "hour",
"type": "forecast",
"model_class": "Mercator",
"enabled": true,
"enabled": false,
"cache": 6,
"attribution": "The Canadian Centre for Meteorological and Environmental Prediction",
"lat_var_key": "lat",
Expand Down Expand Up @@ -925,7 +925,7 @@
"group": "WCPS Forecast",
"subgroup": "2D",
"envtype": ["ocean", "ice"],
"url": "/data/db/wcps-2dll.sqlite3",
"url": "icechunk",
"name": "WCPS-GLS Great Lakes Coupled Atmosphere-Ocean-Ice Forecast - LatLon",
"quantum": "hour",
"type": "forecast",
Expand Down Expand Up @@ -966,7 +966,7 @@
"cmems_daily": {
"group": "CMEMS",
"subgroup": "Reanalysis",
"url": "/data/db/cmems_daily.sqlite3",
"url": "icechunk",
"name": "Copernicus Marine Service Global Ocean 1/12 deg Physics Reanalysis (Daily)",
"quantum": "day",
"type": "historical",
Expand Down Expand Up @@ -1001,7 +1001,7 @@
"cmems_monthly": {
"group": "CMEMS",
"subgroup": "Reanalysis",
"url": "/data/db/cmems_monthly.sqlite3",
"url": "icechunk",
"name": "Copernicus Marine Service Global Ocean 1/12 deg Physics Reanalysis (Monthly)",
"quantum": "month",
"type": "historical",
Expand Down Expand Up @@ -1037,7 +1037,7 @@
"group": "CMEMS",
"subgroup": "Climatology (1993-2019)",
"name": "CMEMS Global Ocean PHYS Reanalysis Climatology 1/12 deg",
"url": "/data/db/glorys12v1_global-annmean.sqlite3",
"url": "icechunk",
"help": "./data-help/glorys12_climatology_monthly.html",
"quantum": "year",
"type": "historical",
Expand Down Expand Up @@ -1072,7 +1072,7 @@
"group": "CMEMS",
"subgroup": "Climatology (1993-2019)",
"name": "CMEMS Global Ocean PHYS Reanalysis Climatology (Monthly mean) 1/12 deg",
"url": "/data/db/mercatorglorys12v1_gl12_mean_monthly.sqlite3",
"url": "icechunk",
"help": "./data-help/glorys12_climatology_monthly.html",
"quantum": "month",
"type": "historical",
Expand Down Expand Up @@ -1107,7 +1107,7 @@
"group": "CMEMS",
"subgroup": "Climatology (1993-2019)",
"name": "CMEMS Global Ocean PHYS Reanalysis Climatology (Seasonal mean) 1/12deg",
"url": "/data/db/mercatorglorys12v1_gl12_mean-seasonal.sqlite3",
"url": "icechunk",
"quantum": "season",
"type": "historical",
"time_dim_units": "hours since 1993-01-01",
Expand Down Expand Up @@ -1141,7 +1141,7 @@
"salishseacast_3d_biology": {
"group": "SalishSeaCast",
"subgroup": "3D",
"enabled": true,
"enabled": false,
"name": "SalishSeaCast 3D Biology",
"envtype": ["ocean"],
"type": "historical",
Expand Down Expand Up @@ -1175,7 +1175,7 @@
"salishseacast_3d_currents": {
"group": "SalishSeaCast",
"subgroup": "3D",
"enabled": true,
"enabled": false,
"name": "SalishSeaCast 3D Currents",
"envtype": ["ocean"],
"type": "historical",
Expand Down Expand Up @@ -1230,7 +1230,7 @@
"salishseacast_2d_ssh": {
"group": "SalishSeaCast",
"subgroup": "2D",
"enabled": true,
"enabled": false,
"name": "SalishSeaCast Sea Surface Height",
"envtype": ["ocean"],
"type": "historical",
Expand Down
4 changes: 3 additions & 1 deletion default.env
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -13,6 +13,8 @@ ONAV_DRIFTER_AGG_URL = "http://172.17.0.9:8080/thredds/dodsC/Drifter/aggregated.
ONAV_DRIFTER_CATALOG_URL = "http://172.17.0.9:8080/thredds/catalog/Drifter/catalog.xml"
ONAV_DRIFTER_URL = "http://172.17.0.9:8080/thredds/dodsC/Drifter/%s.nc"
ONAV_ETOPO_FILE = "/data/misc/etopo_%s_z%d.nc"
ONAV_ICECHUNK_STORAGE_TYPE = "s3"
ONAV_ICECHUNK_STORAGE_CONFIG = "{}"
ONAV_LOG_LEVEL = "DEBUG"
ONAV_OBSERVATION_AGG_URL = "http://10.0.3.232:8080/thredds/dodsC/Misc/observations/aggregated.ncml"
ONAV_OVERLAY_KML_DIR = "/data/kml"
Expand All @@ -21,7 +23,7 @@ ONAV_PROFILING_DIR = "/home/ubuntu/cache/oceannavigator/profile_output/"
ONAV_SENTRY_ENV = ""
ONAV_SENTRY_TRACES_RATE = 0
ONAV_SHAPE_FILE_DIR = "/data/misc/shapes"
ONAV_SQLALCHEMY_DATABASE_URI = "mariadb+mariadbconnector://nav-read:hAReCT*L7fVZzd!F#A9T@142.130.249.15/navigator"
ONAV_SQLALCHEMY_DATABASE_URI = ""
ONAV_SQLALCHEMY_ECHO = False
ONAV_SQLALCHEMY_POOL_RECYCLE = 50
ONAV_SQLALCHEMY_TRACK_MODIFICATIONS = False
Expand Down
16 changes: 9 additions & 7 deletions testing.env
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,26 +1,28 @@
ONAV_BATHYMETRY_FILE = "/data/misc/ETOPO1_Bed_g_gmt4.grd"
ONAV_CACHE_DIR = "/home/ubuntu/cache/oceannavigator"
ONAV_BATHYMETRY_FILE = "tests/testdata/ETOPO1_Bed_g_gmt4.grd"
ONAV_CACHE_DIR = "/tmp/cache/oceannavigator"
ONAV_CLASS4_FNAME_PATTERN = "%s/%s/%s.nc"
ONAV_CLASS4_OP_PATH = "tests/testdata/class4/"
ONAV_CLASS4_RAO_PATH = "tests/testdata/class4-ola/"
ONAV_DASK_MULTIPROCESSING_CONTEXT = "spawn"
ONAV_DASK_NUM_WORKERS = 4
ONAV_DASK_SCHEDULER = "threads"
ONAV_DATASET_SHAPE_FILE_DIR = "/data/misc/dataset_shapes"
ONAV_DATASET_SHAPE_FILE_DIR = "tests/testdata/misc/dataset_shapes"
ONAV_DATASET_CONFIG_FILE = "tests/testdata/datasetconfigpatch.json"
ONAV_DEBUG = False
ONAV_DRIFTER_AGG_URL = "http://172.17.0.9:8080/thredds/dodsC/Drifter/aggregated.ncml"
ONAV_DRIFTER_CATALOG_URL = "http://172.17.0.9:8080/thredds/catalog/Drifter/catalog.xml"
ONAV_DRIFTER_URL = "http://172.17.0.9:8080/thredds/dodsC/Drifter/%s.nc"
ONAV_ETOPO_FILE = "/data/misc/etopo_%s_z%d.nc"
ONAV_ETOPO_FILE = "tests/testdata//misc/etopo_%s_z%d.nc"
ONAV_ICECHUNK_STORAGE_TYPE = "local"
ONAV_ICECHUNK_STORAGE_CONFIG = '{"path":"tests/testdata/icechunk"}'
ONAV_LOG_LEVEL = "INFO"
ONAV_OBSERVATION_AGG_URL = "http://10.0.3.232:8080/thredds/dodsC/Misc/observations/aggregated.ncml"
ONAV_OVERLAY_KML_DIR = "/data/kml"
ONAV_OVERLAY_KML_DIR = "tests/testdata/kml"
ONAV_SENTRY_ENV = ""
ONAV_SENTRY_TRACES_RATE = 0
ONAV_SHAPE_FILE_DIR = "/data/misc/shapes"
ONAV_SHAPE_FILE_DIR = "tests/testdata/misc/shapes"
ONAV_SQLALCHEMY_DATABASE_URI = "mysql://nav-read:hAReCT*L7fVZzd!F#A9T@172.17.0.4/navigator_2022"
ONAV_SQLALCHEMY_ECHO = False
ONAV_SQLALCHEMY_POOL_RECYCLE = 50
ONAV_SQLALCHEMY_TRACK_MODIFICATIONS = False
ONAV_TILE_CACHE_DIR = "/home/ubuntu/cache/oceannavigator/tiles"
ONAV_TILE_CACHE_DIR = "/tmp/cache/oceannavigator/tiles"