INFO 2025-06-26 10:47:23,042 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 10:47:23,042 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Conducted from the Sproul on John Ryan's LOCO project - ctdToUse = ctd1 INFO 2025-06-26 10:47:23,042 process.py process_mission():449 [1] Processing LOCO mission 2005.237.02 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:47:23,042 process.py download_process():165 [1] Download and processing steps for 2005.237.02 INFO 2025-06-26 10:47:23,042 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005237/2005.237.02 INFO 2025-06-26 10:47:23,042 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005237/2005.237.02 to /data/auv_data/dorado/missionlogs/2005.237.02 INFO 2025-06-26 10:47:23,812 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.237.02 INFO 2025-06-26 10:47:23,812 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/ctdDriver.log (8741611 bytes) INFO 2025-06-26 10:47:24,460 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/ctdDriver2.log (8740989 bytes) INFO 2025-06-26 10:47:25,111 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/gps.log (195332 bytes) INFO 2025-06-26 10:47:25,140 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/hydroscatlog.log (5963354 bytes) INFO 2025-06-26 10:47:25,833 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.237.02/hydroscatlog.log: [30] INFO 2025-06-26 10:47:25,848 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/navigation.log (29309674 bytes) INFO 2025-06-26 10:47:27,933 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/isuslog.log (534325 bytes) INFO 2025-06-26 10:47:27,990 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/parosci.log (12749366 bytes) INFO 2025-06-26 10:47:29,032 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.237.02/parosci.log: [100512] INFO 2025-06-26 10:47:29,065 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/tailCone.log (5966107 bytes) INFO 2025-06-26 10:47:29,799 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.02/biolume.log (6765324 bytes) INFO 2025-06-26 10:47:30,450 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:47:30,795 logs2netcdfs.py download_process_logs():807 [1] Time to process: 6.98 seconds WARNING 2025-06-26 10:47:30,796 process.py download_process():196 [1] No lopc.bin file for 2005.237.02 INFO 2025-06-26 10:47:30,796 process.py calibrate():227 [1] Calibration steps for 2005.237.02 INFO 2025-06-26 10:47:31,005 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 10:47:31,007 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:47:32,079 calibrate.py _nudge_pos():1806 [1] 128: 0.120 -0.0016365 0.0000209 3630 12.10 -20.037 0.320 2005-08-25T16:13:16.340704896 INFO 2025-06-26 10:47:32,628 calibrate.py _nudge_pos():1806 [1] 184: 0.150 -0.0001904 -0.0000536 7915 26.38 -1.069 -0.376 2005-08-25T16:40:34.338494336 INFO 2025-06-26 10:47:33,599 calibrate.py _nudge_pos():1806 [1] 282: 0.120 -0.0002195 -0.0000394 7795 25.98 -1.252 -0.281 2005-08-25T17:08:10.345050112 INFO 2025-06-26 10:47:34,661 calibrate.py _nudge_pos():1806 [1] 392: 0.110 -0.0002722 -0.0000545 8275 27.58 -1.463 -0.366 2005-08-25T17:37:34.344208000 INFO 2025-06-26 10:47:35,559 calibrate.py _nudge_pos():1806 [1] 484: 0.100 -0.0002482 0.0000062 8395 27.98 -1.316 0.041 2005-08-25T18:07:04.342954624 INFO 2025-06-26 10:47:36,418 calibrate.py _nudge_pos():1806 [1] 572: 0.110 -0.0002218 -0.0000092 8075 26.91 -1.223 -0.064 2005-08-25T18:35:26.346359552 INFO 2025-06-26 10:47:37,533 calibrate.py _nudge_pos():1806 [1] 685: 0.110 -0.0003480 0.0000031 8990 29.96 -1.723 0.019 2005-08-25T19:07:16.345515776 INFO 2025-06-26 10:47:38,437 calibrate.py _nudge_pos():1806 [1] 777: 0.110 -0.0012653 0.0010404 7855 26.18 -7.169 7.364 2005-08-25T19:34:58.341660928 INFO 2025-06-26 10:47:39,378 calibrate.py _nudge_pos():1806 [1] 872: 0.130 -0.0014734 0.0003802 8140 27.13 -8.054 2.597 2005-08-25T20:03:40.343695872 INFO 2025-06-26 10:47:40,264 calibrate.py _nudge_pos():1806 [1] 958: 0.130 -0.0013422 0.0004183 7825 26.08 -7.630 2.972 2005-08-25T20:31:10.340663424 INFO 2025-06-26 10:47:41,223 calibrate.py _nudge_pos():1806 [1] 1053: 0.120 -0.0011064 0.0002051 5830 19.43 -8.440 1.956 2005-08-25T20:52:10.344347264 INFO 2025-06-26 10:47:42,220 calibrate.py _nudge_pos():1806 [1] 1153: 0.120 -0.0018525 -0.0018120 7005 23.35 -11.759 -14.382 2005-08-25T21:17:10.341590400 INFO 2025-06-26 10:47:43,223 calibrate.py _nudge_pos():1806 [1] 1253: 0.130 -0.0023203 -0.0019925 8085 26.95 -12.757 -13.702 2005-08-25T21:45:46.344036096 INFO 2025-06-26 10:47:44,273 calibrate.py _nudge_pos():1806 [1] 1358: 0.130 -0.0023906 -0.0020135 8270 27.56 -12.847 -13.536 2005-08-25T22:15:04.343604864 INFO 2025-06-26 10:47:45,531 calibrate.py _nudge_pos():1806 [1] 1482: 0.130 -0.0014329 -0.0010519 4785 15.95 -13.308 -12.223 2005-08-25T22:33:04.339620096 INFO 2025-06-26 10:47:57,812 calibrate.py _nudge_pos():1862 [1] 2679: - - - 1 0.00 - - INFO 2025-06-26 10:47:57,813 calibrate.py _nudge_pos():1868 [1] Points in final series = 124179 WARNING 2025-06-26 10:48:02,116 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:48:15,201 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:48:16,156 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:48:16,897 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:48:16,900 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.237.02/ctd1.nc INFO 2025-06-26 10:48:16,901 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:48:16,901 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:48:16,901 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:48:17,792 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:48:18,551 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:48:18,553 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.237.02/ctd2.nc INFO 2025-06-26 10:48:18,555 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:48:18,555 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:48:18,555 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:48:18,593 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:48:19,794 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 5340 6840 7200 7380 7980 11340 11520 11700 16440 23160 23340 30660 71040 97860 102000 120180 120360 126180 126540 127500 129960 130500 130680 134640 153780 172380 188040 188220 199680 228480 233580 234480 237360 237540 254040 258720 323340 324720 332100 332280 332700 345420 348480 350220 352140 352500 354060 355920 356460 357180 367620 376140 379080 408360 462000 462540 463860 486420 519120 525540 565260 586080 586620 617640 683340 687120 687300 733560 776160 777840 778560 798480 802080 805920 808800 810420 823980 844620 861120 876420 884880 891300 912360 913140 916860 920100 923160 924060 924240 924420 931320 931860 935640 935820 937920 938100 954780 976080 991680 1029420 1033200 1033560 1033920 1037700 1038600 1153980 1159260 1159800 1159980 1160340 1160520 1164300 1164480 1164660 1164900 1182120 1207680 1208040 1229640 1235100 1249860 1257900 1258080 1260540 1261260 1261860 1264680 1264860 1280040 1294140 1304640 1318020 1318740 1318920 1373640 1387560 1390800 1390980 1391160 1421880 1422240 1422600 1422960 1428240 1428960 1446360 1461840 1469340 1470060 1470480 1475700 1486560] INFO 2025-06-26 10:48:20,024 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:48:20,030 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 10:48:20,030 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.237.02 ERROR 2025-06-26 10:48:20,030 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.237.02 INFO 2025-06-26 10:48:20,130 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_cal.nc INFO 2025-06-26 10:48:20,241 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 10:48:20,246 process.py align():251 [1] Alignment steps for 2005.237.02 INFO 2025-06-26 10:48:20,276 align.py process_cal():139 [1] Processing dorado_2005.237.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.237.02 INFO 2025-06-26 10:48:20,315 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:48:20,320 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:48:20,414 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:48:20,420 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:48:20,508 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:48:20,514 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:48:20,569 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:48:20,569 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:48:20,606 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:48:20,612 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:48:20,700 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:48:20,706 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:20,785 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:48:20,789 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:20,867 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:48:20,873 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:20,953 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:20,958 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,037 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,042 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,124 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,129 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,206 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,211 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,289 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,294 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,371 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,376 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,454 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,459 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,536 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,541 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,623 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,628 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,707 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,712 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,791 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,796 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,871 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,877 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:21,956 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:21,962 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:22,042 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:22,047 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:22,128 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:22,133 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:22,223 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:22,228 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:22,306 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:48:22,311 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:48:22,412 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:48:22,483 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:48:22,550 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:48:22,620 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:48:22,695 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:48:22,759 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_align.nc INFO 2025-06-26 10:48:22,849 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 10:48:22,852 process.py resample():273 [1] Resampling steps for 2005.237.02 INFO 2025-06-26 10:48:22,852 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:48:22,879 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_align.nc mission netCDF file INFO 2025-06-26 10:48:22,885 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_align.nc mission netCDF file INFO 2025-06-26 10:48:22,887 resample.py get_mission_start_end():1145 [1] navigation: 2005-08-25T15:59:25.757603840 to 2005-08-25T22:53:22.546167168 (0 days 00:00:00.029998080 before mission_end) INFO 2025-06-26 10:48:22,889 resample.py get_mission_start_end():1145 [1] hs2 : 2005-08-25T15:59:08.318798336 to 2005-08-25T22:53:22.426175360 (0 days 00:00:00.149989888 before mission_end) INFO 2025-06-26 10:48:22,890 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-08-25T15:59:31.087238784 to 2005-08-25T22:53:22.496170496 (0 days 00:00:00.079994752 before mission_end) INFO 2025-06-26 10:48:22,892 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-08-25T15:59:32.597135360 to 2005-08-25T22:53:22.506169984 (0 days 00:00:00.069995264 before mission_end) INFO 2025-06-26 10:48:22,894 resample.py get_mission_start_end():1145 [1] isus : 2005-08-25T16:00:29.433241600 to 2005-08-25T22:53:22.186191744 (0 days 00:00:00.389973504 before mission_end) INFO 2025-06-26 10:48:22,895 resample.py get_mission_start_end():1145 [1] biolume : 2005-08-25T15:59:03.509093760 to 2005-08-25T22:53:21.856180224 (0 days 00:00:00.719985024 before mission_end) INFO 2025-06-26 10:48:22,897 resample.py get_mission_start_end():1145 [1] tailcone : 2005-08-25T15:59:03.789108736 to 2005-08-25T22:53:22.576165248 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:48:22,897 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_align.nc mission netCDF file INFO 2025-06-26 10:48:22,898 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,173 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,219 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,264 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,309 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,349 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,388 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,427 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,466 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,503 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,539 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,575 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,612 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,648 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,684 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,721 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,757 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,796 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,836 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,875 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,913 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,953 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:23,991 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,011 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,027 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,041 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,058 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,101 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:48:24,338 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_1S.nc INFO 2025-06-26 10:48:25,472 create_products.py gulper_odv():401 [1] No gulper times found for 2005.237.02 INFO 2025-06-26 10:48:25,472 process.py archive():337 [1] Archiving steps for 2005.237.02 INFO 2025-06-26 10:48:25,472 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02, BASE_PATH = /data/auv_data INFO 2025-06-26 10:48:25,474 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:48:25,475 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.02_1S.nc INFO 2025-06-26 10:48:25,497 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:48:25,497 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.02_cal.nc INFO 2025-06-26 10:48:25,613 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:48:25,615 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.02_align.nc INFO 2025-06-26 10:48:25,721 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:48:25,748 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,774 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,779 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,797 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,883 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,890 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,926 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:25,948 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:26,016 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.02 done. INFO 2025-06-26 10:48:26,017 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:48:26,017 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.02/dorado_2005.237.02_processing.log /Volumes/AUVCTD/surveys/2005/netcdf