This repository has been archived by the owner on Jun 1, 2023. It is now read-only.
-
Notifications
You must be signed in to change notification settings - Fork 13
/
getters.yml
307 lines (263 loc) · 15.3 KB
/
getters.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
target_default: none
packages:
- scipiper
targets:
none:
depends:
#### 1_network ####
# store the DRB network from Steve in the google drive folder and fetch it.
# ind file created with gd_confirm_posted('1_network/in/delaware_stream_temp_by_segment.zip.ind')
1_network/in/delaware_stream_temp_by_segment.zip:
command: gd_get('1_network/in/delaware_stream_temp_by_segment.zip.ind')
# we downloaded/uploaded reservoirs and dams to Drive.
# ind file created with gd_confirm_posted('1_network/in/dams-rev01-global-shp.zip.ind')
1_network/in/dams-rev01-global-shp.zip:
command: gd_get('1_network/in/dams-rev01-global-shp.zip.ind')
1_network/out/global_dams.rds:
command: gd_get('1_network/out/global_dams.rds.ind')
# ind file created with gd_confirm_posted('1_network/in/reservoirs-rev01-global-shp.zip.ind')
1_network/in/reservoirs-rev01-global-shp.zip:
command: gd_get('1_network/in/reservoirs-rev01-global-shp.zip.ind')
1_network/out/global_reservoirs.rds:
command: gd_get('1_network/out/global_reservoirs.rds.ind')
1_network/out/network.rds:
command: gd_get('1_network/out/network.rds.ind')
1_network/out/network.json:
command: gd_get('1_network/out/network.json.ind')
1_network/out/boundary.rds:
command: gd_get('1_network/out/boundary.rds.ind')
1_network/out/subseg_distance_matrix.rds:
command: gd_get('1_network/out/subseg_distance_matrix.rds.ind')
1_network/out/filtered_dams_reservoirs.rds:
command: gd_get('1_network/out/filtered_dams_reservoirs.rds.ind')
1_network/out/subseg_reservoir_mapping.rds:
command: gd_get('1_network/out/subseg_reservoir_mapping.rds.ind')
1_network/out/segments_relative_to_reservoirs.rds:
command: gd_get('1_network/out/segments_relative_to_reservoirs.rds.ind')
#### 2_observations ####
# temperature sites and data (placed on drive from/by 2wp-temperature-obs by SKO on 2022/04/25)
# and verified with gd_confirm_posted
2_observations/in/stream_sites_us.rds:
command: gd_get('2_observations/in/stream_sites_us.rds.ind')
2_observations/in/daily_temperatures_qaqc.rds:
command: gd_get('2_observations/in/daily_temperatures_qaqc.rds.ind')
# flow sites and data
# national flow data and summary from https://github.com/USGS-R/national-flow-observations
# pushed to S3 at https://s3.console.aws.amazon.com/s3/buckets/ds-pipeline-national-flow-observations?region=us-west-2&prefix=20_data_munge/out/&showversions=false
# these files were uploaded to GD to the appropriate place on 22/03/30 by Sam Oliver,
# then used gd_confirm_posted to check and create indicator file
2_observations/in/observation_summary.rds:
command: gd_get('2_observations/in/observation_summary.rds.ind')
2_observations/in/daily_flow.rds:
command: gd_get('2_observations/in/daily_flow.rds.ind')
2_observations/out/extra_flow_sites.rds:
command: gd_get('2_observations/out/extra_flow_sites.rds.ind')
# priority sites for forecasting
2_observations/out/obs_temp_priority_sites.csv:
command: gd_get('2_observations/out/obs_temp_priority_sites.csv.ind')
2_observations/out/obs_flow_priority_sites.csv:
command: gd_get('2_observations/out/obs_flow_priority_sites.csv.ind')
# reservoir release data, from Jeff, via Kendra request from NYC employee
2_observations/in/PCN_Spill_Release.xlsx:
command: gd_get('2_observations/in/PCN_Spill_Release.xlsx.ind')
2_observations/out/reservoir_releases.csv:
command: gd_get('2_observations/out/reservoir_releases.csv.ind')
# these data were manually extracted from ODRM reports
# to gap fill NYC DEP data, data from NY WSC, and modern data from NWIS
# reports found here under weekly data archived by month/year: https://webapps.usgs.gov/odrm/data/data.html
2_observations/in/manually_extracted_odrm_data.csv:
command: gd_get('2_observations/in/manually_extracted_odrm_data.csv.ind')
2_observations/out/modern_reservoir_releases.rds:
command: gd_get('2_observations/out/modern_reservoir_releases.rds.ind')
2_observations/out/reservoir_releases_by_type_drb.csv:
command: gd_get('2_observations/out/reservoir_releases_by_type_drb.csv.ind')
# list of NGWOS sites from Brian Pellerin, receieved 2020-04-18
2_observations/in/NGWOS_site_metadata.xlsx:
command: gd_get('2_observations/in/NGWOS_site_metadata.xlsx.ind')
2_observations/out/NGWOS_sites_data.rds:
command: gd_get('2_observations/out/NGWOS_sites_data.rds.ind')
2_observations/out/crosswalk_site_reach.rds:
command: gd_get('2_observations/out/crosswalk_site_reach.rds.ind')
2_observations/out/drb_filtered_sites.rds:
command: gd_get('2_observations/out/drb_filtered_sites.rds.ind')
2_observations/out/GFv1_NHDv2_xwalk.csv:
command: gd_get('2_observations/out/GFv1_NHDv2_xwalk.csv.ind')
2_observations/out/usgs_nldi_gages.geojson:
command: gd_get('2_observations/out/usgs_nldi_gages.geojson.ind')
2_observations/out/flagged_sitetoreach_matches.rds:
command: gd_get('2_observations/out/flagged_sitetoreach_matches.rds.ind')
2_observations/out/check_flagged_sites.rds:
command: gd_get('2_observations/out/check_flagged_sites.rds.ind')
2_observations/out/drb_filtered_sites_qa.rds:
command: gd_get('2_observations/out/drb_filtered_sites_qa.rds.ind')
# this file was manually created by Lauren Koenig in April 2022
# This represents manual/visual inspection and decisions about whether
# to keep or throw site to reach matches that were flagged in file
# 2_observations/out/sites_flags.rds.ind. Uploaded to GD and indicated
# with gd_confirm_posted()
2_observations/in/drb_filtered_sites_seg_match_QC.csv:
command: gd_get('2_observations/in/drb_filtered_sites_seg_match_QC.csv.ind')
2_observations/out/all_drb_temp_obs.rds:
command: gd_get('2_observations/out/all_drb_temp_obs.rds.ind')
2_observations/out/obs_temp_drb_raw.rds:
command: gd_get('2_observations/out/obs_temp_drb_raw.rds.ind')
2_observations/out/obs_temp_drb.rds:
command: gd_get('2_observations/out/obs_temp_drb.rds.ind')
2_observations/out/obs_flow_drb.rds:
command: gd_get('2_observations/out/obs_flow_drb.rds.ind')
# reservoir diversion data
2_observations/out/observed_daily_reservoir_water_budget_components.csv:
command: gd_get('2_observations/out/observed_daily_reservoir_water_budget_components.csv.ind')
2_observations/out/observed_monthly_reservoir_water_budget_components.csv:
command: gd_get('2_observations/out/observed_monthly_reservoir_water_budget_components.csv.ind')
2_observations/out/interpolated_daily_reservoir_water_budget_components.csv:
command: gd_get('2_observations/out/interpolated_daily_reservoir_water_budget_components.csv.ind')
# reservoir realsat surface area data
2_observations/out/raw_realsat_reservoir_data.csv:
command: gd_get('2_observations/out/raw_realsat_reservoir_data.csv.ind')
2_observations/out/realsat_monthly_surface_area.csv:
command: gd_get('2_observations/out/realsat_monthly_surface_area.csv.ind')
#### 3_predictions ####
# prms-sntemp model zip file
3_predictions/in/prms_sntemp/20191002_Delaware_streamtemp.zip:
command: gd_get('3_predictions/in/prms_sntemp/20191002_Delaware_streamtemp.zip.ind')
#
3_predictions/out/uncal_sntemp_input_output.feather:
command: gd_get('3_predictions/out/uncal_sntemp_input_output.feather.ind')
3_predictions/out/drb_subbasins.rds:
command: gd_get(ind_file = '3_predictions/out/drb_subbasins.rds.ind')
3_predictions/out/uncal_sntemp_input_output_subbasin_4182.feather:
command: gd_get(ind_file = '3_predictions/out/uncal_sntemp_input_output_subbasin_4182.feather.ind')
# segment-level drivers, intermediate model variables, and stream temperature predictions using uncalibrated PRMS-SNTemp
# from https://github.com/jzwart/delaware-water-temp/blob/626d6d159daccfcf52c5e7fddf88d24031f35e6d/4_model_for_PGDL.yml#L42-L46
3_predictions/in/uncal_sntemp_input_output.feather:
command: gd_get('3_predictions/in/uncal_sntemp_input_output.feather.ind')
3_predictions/out/uncal_sntemp_preds.csv:
command: gd_get('3_predictions/out/uncal_sntemp_preds.csv.ind')
# 22/04/07 version of PRMS-SNTemp
# now being run at https://code.usgs.gov/wma/wp/run-prms-sntemp
# added to GD and ran gd_confirm_posted on 22/04/07
3_predictions/in/uncal_sntemp_input_output.nc:
command: gd_get('3_predictions/in/uncal_sntemp_input_output.nc.ind')
# Xiaowei's original output using 100% of process model output in training period
# original file he sent was titled prd_RGCN_full_obstemp_cv2_full.npy
3_predictions/in/rgcn_v1_preds_raw.npy:
command: gd_get('3_predictions/in/rgcn_v1_preds_raw.npy.ind')
3_predictions/out/rgcn_v1_preds.feather:
command: gd_get('3_predictions/out/rgcn_v1_preds.feather.ind')
# this is a test of Jeff's output, sent to Sam on 3/31
# RGCN is what XJ originally called the model =
# river graph convolutional network
3_predictions/in/rgcn_v2_preds.feather:
command: gd_get('3_predictions/in/rgcn_v2_preds.feather.ind')
# Jeff's full DRB model
3_predictions/in/rgcn_v2_preds_full.feather:
command: gd_get('3_predictions/in/rgcn_v2_preds_full.feather.ind')
3_predictions/out/compare_predictions_obs.feather:
command: gd_get('3_predictions/out/compare_predictions_obs.feather.ind')
# dwallin model
3_predictions/in/reservoir_downstream_preds.csv:
command: gd_get('3_predictions/in/reservoir_downstream_preds.csv.ind')
3_predictions/out/dwallin_stream_preds.csv:
command: gd_get('3_predictions/out/dwallin_stream_preds.csv.ind')
### 3_hybrid_predictions ###
# these files were uploaded to GD to the appropriate place,
# then used gd_confirm_posted to check and create indicator file
3_hybrid_predictions/in/RNN_0518.npy:
command: gd_get('3_hybrid_predictions/in/RNN_0518.npy.ind')
3_hybrid_predictions/in/RGCN_0518_woptr.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0518_woptr.npy.ind')
3_hybrid_predictions/in/RGCN_0518_wctr.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0518_wctr.npy.ind')
3_hybrid_predictions/in/RGCN_0518.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0518.npy.ind')
3_hybrid_predictions/in/ANN_0831.npy:
command: gd_get('3_hybrid_predictions/in/ANN_0831.npy.ind')
3_hybrid_predictions/in/PGRNN_0716.npy:
command: gd_get('3_hybrid_predictions/in/PGRNN_0716.npy.ind')
# model runs with 2% and 0.1% of training data
3_hybrid_predictions/in/RNN_0507_d001.npy:
command: gd_get('3_hybrid_predictions/in/RNN_0507_d001.npy.ind')
3_hybrid_predictions/in/RNN_0507_d02.npy:
command: gd_get('3_hybrid_predictions/in/RNN_0507_d02.npy.ind')
3_hybrid_predictions/in/RGCN_woptr_0507_d001.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_woptr_0507_d001.npy.ind')
3_hybrid_predictions/in/RGCN_woptr_0507_d02.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_woptr_0507_d02.npy.ind')
3_hybrid_predictions/in/RGCN_0507_wctr_d001.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0507_wctr_d001.npy.ind')
3_hybrid_predictions/in/RGCN_0507_wctr_d02.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0507_wctr_d02.npy.ind')
3_hybrid_predictions/in/RGCN_0507_d001.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0507_d001.npy.ind')
3_hybrid_predictions/in/RGCN_0507_d02.npy:
command: gd_get('3_hybrid_predictions/in/RGCN_0507_d02.npy.ind')
3_hybrid_predictions/in/ANN_0507_d001.npy:
command: gd_get('3_hybrid_predictions/in/ANN_0507_d001.npy.ind')
3_hybrid_predictions/in/ANN_0507_d02.npy:
command: gd_get('3_hybrid_predictions/in/ANN_0507_d02.npy.ind')
3_hybrid_predictions/in/PGRNN_0507_d001.npy:
command: gd_get('3_hybrid_predictions/in/PGRNN_0507_d001.npy.ind')
3_hybrid_predictions/in/PGRNN_0507_d02.npy:
command: gd_get('3_hybrid_predictions/in/PGRNN_0507_d02.npy.ind')
3_hybrid_predictions/out/compare_predictions_obs_d100.rds:
command: gd_get('3_hybrid_predictions/out/compare_predictions_obs_d100.rds.ind')
3_hybrid_predictions/out/compare_predictions_obs_d001.rds:
command: gd_get('3_hybrid_predictions/out/compare_predictions_obs_d001.rds.ind')
3_hybrid_predictions/out/compare_predictions_obs_d02.rds:
command: gd_get('3_hybrid_predictions/out/compare_predictions_obs_d02.rds.ind')
3_hybrid_predictions/out/compare_predictions_obs.rds:
command: gd_get('3_hybrid_predictions/out/compare_predictions_obs.rds.ind')
#### 9_collaborator_data ####
## Makerspace ##
9_collaborator_data/mkrsp/delaware_sites_summary.rds:
command: gd_get('9_collaborator_data/mkrsp/delaware_sites_summary.rds.ind')
9_collaborator_data/mkrsp/delaware_sites_summary.geojson:
command: gd_get('9_collaborator_data/mkrsp/delaware_sites_summary.geojson.ind')
## University of Minnesota ##
9_collaborator_data/umn/distance_matrix.rds:
command: gd_get('9_collaborator_data/umn/distance_matrix.rds.ind')
9_collaborator_data/umn/distance_matrix.npz:
command: gd_get('9_collaborator_data/umn/distance_matrix.npz.ind')
9_collaborator_data/umn/network_subset.rds:
command: gd_get('9_collaborator_data/umn/network_subset.rds.ind')
9_collaborator_data/umn/distance_matrix_subset.rds:
command: gd_get('9_collaborator_data/umn/distance_matrix_subset.rds.ind')
9_collaborator_data/umn/distance_matrix_subset.npz:
command: gd_get('9_collaborator_data/umn/distance_matrix_subset.npz.ind')
9_collaborator_data/umn/obs_temp_full.csv:
command: gd_get('9_collaborator_data/umn/obs_temp_full.csv.ind')
9_collaborator_data/umn/obs_temp_subset.csv:
command: gd_get('9_collaborator_data/umn/obs_temp_subset.csv.ind')
9_collaborator_data/umn/obs_flow_full.csv:
command: gd_get('9_collaborator_data/umn/obs_flow_full.csv.ind')
9_collaborator_data/umn/obs_flow_subset.csv:
command: gd_get('9_collaborator_data/umn/obs_flow_subset.csv.ind')
9_collaborator_data/umn/reservoir_features.csv:
command: gd_get('9_collaborator_data/umn/reservoir_features.csv.ind')
9_collaborator_data/umn/network_subset_lordville.rds:
command: gd_get('9_collaborator_data/umn/network_subset_lordville.rds.ind')
9_collaborator_data/umn/distance_matrix_lordville.rds:
command: gd_get('9_collaborator_data/umn/distance_matrix_lordville.rds.ind')
9_collaborator_data/umn/obs_temp_subset_lordville.csv:
command: gd_get('9_collaborator_data/umn/obs_temp_subset_lordville.csv.ind')
9_collaborator_data/umn/obs_flow_subset_lordville.csv:
command: gd_get('9_collaborator_data/umn/obs_flow_subset_lordville.csv.ind')
## Penn State ##
9_collaborator_data/psu/highly_observed_sites.csv:
command: gd_get('9_collaborator_data/psu/highly_observed_sites.csv.ind')
9_collaborator_data/psu/highly_obs_distance_matrix.rds:
command: gd_get('9_collaborator_data/psu/highly_obs_distance_matrix.rds.ind')
9_collaborator_data/psu/highly_obs_distance_matrix.csv:
command: gd_get('9_collaborator_data/psu/highly_obs_distance_matrix.csv.ind')
9_collaborator_data/psu/sntemp_preds_aggregated.feather:
command: gd_get('9_collaborator_data/psu/sntemp_preds_aggregated.feather.ind')
9_collaborator_data/psu/temp_obs_high_obs_sites.csv:
command: gd_get('9_collaborator_data/psu/temp_obs_high_obs_sites.csv.ind')
9_collaborator_data/psu/flow_obs_high_obs_sites.csv:
command: gd_get('9_collaborator_data/psu/flow_obs_high_obs_sites.csv.ind')
## Reservoirs ##
9_collaborator_data/res/res_io_obs.feather:
command: gd_get('9_collaborator_data/res/res_io_obs.feather.ind')
9_collaborator_data/res/res_io_sntemp.feather:
command: gd_get('9_collaborator_data/res/res_io_sntemp.feather.ind')