INFO 2025-06-26 06:05:27,255 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 06:05:27,256 process.py process_mission():434 [1] dorado_info[mission]["comment"] = SDP on 1 Nov 2004 Re-portaled 8/19/05 - ctdToUse = ctd1 INFO 2025-06-26 06:05:27,256 process.py process_mission():449 [1] Processing AUVCTD mission 2004.295.03 by user docker_user on host 671049448ece INFO 2025-06-26 06:05:27,256 process.py download_process():165 [1] Download and processing steps for 2004.295.03 INFO 2025-06-26 06:05:27,256 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004295/2004.295.03 INFO 2025-06-26 06:05:27,256 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004295/2004.295.03 to /data/auv_data/dorado/missionlogs/2004.295.03 INFO 2025-06-26 06:05:32,659 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.295.03 INFO 2025-06-26 06:05:32,659 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/ctdDriver.log (6800331 bytes) INFO 2025-06-26 06:05:33,167 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/ctdDriver2.log (53101 bytes) INFO 2025-06-26 06:05:33,178 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/gps.log (178556 bytes) INFO 2025-06-26 06:05:33,204 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/hydroscatlog.log (4636574 bytes) INFO 2025-06-26 06:05:33,755 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2004.295.03/hydroscatlog.log: [ 3280 37328 37329] INFO 2025-06-26 06:05:33,766 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/navigation.log (15058687 bytes) INFO 2025-06-26 06:05:34,900 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/isuslog.log (398517 bytes) INFO 2025-06-26 06:05:34,943 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/parosci.log (4638470 bytes) INFO 2025-06-26 06:05:35,359 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/tailCone.log (4638667 bytes) INFO 2025-06-26 06:05:35,945 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.295.03/biolume.log (5260620 bytes) INFO 2025-06-26 06:05:36,462 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 06:05:36,740 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.08 seconds WARNING 2025-06-26 06:05:36,741 process.py download_process():196 [1] No lopc.bin file for 2004.295.03 INFO 2025-06-26 06:05:36,741 process.py calibrate():227 [1] Calibration steps for 2004.295.03 INFO 2025-06-26 06:05:36,914 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 06:05:36,916 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 06:05:37,035 calibrate.py _nudge_pos():1806 [1] 29: 0.030 -0.0000389 0.0000584 35 0.11 -50.973 95.482 2004-10-21T17:17:59.154132608 INFO 2025-06-26 06:05:38,234 calibrate.py _nudge_pos():1806 [1] 155: 0.060 -0.0000234 0.0000335 30 0.10 -36.016 64.302 2004-10-21T17:20:10.145159296 INFO 2025-06-26 06:05:38,461 calibrate.py _nudge_pos():1806 [1] 178: 0.080 0.0014767 0.0070004 11364 37.88 5.789 34.244 2004-10-21T17:58:25.147940608 INFO 2025-06-26 06:05:39,031 calibrate.py _nudge_pos():1806 [1] 236: 0.080 0.0006882 0.0062650 11405 38.03 2.687 30.526 2004-10-21T18:37:25.147639808 INFO 2025-06-26 06:05:39,617 calibrate.py _nudge_pos():1806 [1] 297: 0.080 -0.0009197 0.0063689 11485 38.28 -3.567 30.830 2004-10-21T19:16:43.146105728 INFO 2025-06-26 06:05:40,267 calibrate.py _nudge_pos():1806 [1] 363: 0.070 -0.0007895 0.0049706 11345 37.81 -3.099 24.358 2004-10-21T19:55:37.146215936 INFO 2025-06-26 06:05:40,822 calibrate.py _nudge_pos():1806 [1] 420: 0.080 0.0003348 0.0039198 11450 38.16 1.302 19.032 2004-10-21T20:34:43.145503744 INFO 2025-06-26 06:05:41,291 calibrate.py _nudge_pos():1806 [1] 467: 0.080 0.0000160 0.0000412 80 0.26 9.033 28.998 2004-10-21T20:35:45.151256064 INFO 2025-06-26 06:05:41,386 calibrate.py _nudge_pos():1806 [1] 475: 0.090 0.0010849 0.0033553 11233 37.45 4.300 16.603 2004-10-21T21:13:19.146846720 INFO 2025-06-26 06:05:41,890 calibrate.py _nudge_pos():1806 [1] 528: 0.080 0.0016671 0.0010408 10900 36.33 6.811 5.309 2004-10-21T21:50:31.153944064 INFO 2025-06-26 06:05:42,361 calibrate.py _nudge_pos():1806 [1] 576: 0.080 0.0009195 0.0000887 4895 16.31 8.366 1.007 2004-10-21T22:07:37.153658112 INFO 2025-06-26 06:05:48,668 calibrate.py _nudge_pos():1806 [1] 1218: 0.080 -0.0000086 0.0000619 45 0.15 -8.688 78.241 2004-10-21T22:18:28.149061888 INFO 2025-06-26 06:05:50,407 calibrate.py _nudge_pos():1806 [1] 1394: 0.080 0.0000037 -0.0000532 50 0.16 3.406 -60.353 2004-10-21T22:21:33.146388736 INFO 2025-06-26 06:05:51,377 calibrate.py _nudge_pos():1806 [1] 1493: 0.090 0.0000252 -0.0000716 25 0.08 46.826 -165.788 2004-10-21T22:23:17.149264128 INFO 2025-06-26 06:06:00,978 calibrate.py _nudge_pos():1862 [1] 2447: - - - 3 0.01 - - INFO 2025-06-26 06:06:00,979 calibrate.py _nudge_pos():1868 [1] Points in final series = 96522 WARNING 2025-06-26 06:06:01,057 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 06:06:10,773 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 2686 of 77258 INFO 2025-06-26 06:06:11,370 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:06:12,077 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:06:12,665 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:06:12,667 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.295.03/ctd1.nc WARNING 2025-06-26 06:06:12,669 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (3858) ctd1_salinity values found outside of range. This may indicate a problem with the ctd1 data. INFO 2025-06-26 06:06:12,670 calibrate.py _range_qc_combined_nc():898 [1] Setting 3858 ctd1_salinity values to NaN INFO 2025-06-26 06:06:12,670 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 06:06:12,670 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 06:06:12,719 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -19030 seconds INFO 2025-06-26 06:06:12,742 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -19030 seconds INFO 2025-06-26 06:06:12,744 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.295.03/ctd2.nc INFO 2025-06-26 06:06:12,745 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 06:06:12,745 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 06:06:12,745 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 06:06:12,776 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 06:06:13,686 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [172080 172081 172082 172083 172084 172085 172086 172087 172088 172089 172090 172091 172092 172093 172094] INFO 2025-06-26 06:06:13,851 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 06:06:13,856 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 06:06:13,857 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.295.03 ERROR 2025-06-26 06:06:13,857 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.295.03 INFO 2025-06-26 06:06:13,933 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_cal.nc INFO 2025-06-26 06:06:14,013 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 06:06:14,018 process.py align():251 [1] Alignment steps for 2004.295.03 INFO 2025-06-26 06:06:14,045 align.py process_cal():139 [1] Processing dorado_2004.295.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.295.03 INFO 2025-06-26 06:06:14,074 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:06:14,077 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:06:14,151 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:06:14,156 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:06:14,224 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:06:14,229 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:06:14,272 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 06:06:14,272 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 06:06:14,300 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:06:14,304 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:06:14,372 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:06:14,377 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 06:06:14,437 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:06:14,441 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 06:06:14,501 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:06:14,505 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 06:06:14,568 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,572 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,634 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,639 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,699 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,704 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,765 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,769 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,831 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,835 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,897 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,901 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:14,963 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:14,967 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:15,031 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,035 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:15,096 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,100 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:15,161 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,165 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:06:15,219 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,222 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,247 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,249 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,275 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,277 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,301 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,303 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,329 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,331 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,356 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,358 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,383 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.295.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:06:15,385 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 2.14 INFO 2025-06-26 06:06:15,421 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:06:15,464 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:06:15,507 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:06:15,553 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 06:06:15,602 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:06:15,650 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_align.nc INFO 2025-06-26 06:06:15,723 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 06:06:15,726 process.py resample():273 [1] Resampling steps for 2004.295.03 INFO 2025-06-26 06:06:15,726 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 06:06:15,752 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_align.nc mission netCDF file INFO 2025-06-26 06:06:15,757 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_align.nc mission netCDF file INFO 2025-06-26 06:06:15,759 resample.py get_mission_start_end():1145 [1] navigation: 2004-10-21T17:17:45.955036928 to 2004-10-21T22:39:31.752499072 (0 days 00:00:00.009999360 before mission_end) INFO 2025-06-26 06:06:15,760 resample.py get_mission_start_end():1145 [1] hs2 : 2004-10-21T17:17:28.226251392 to 2004-10-21T22:28:42.246993280 (0 days 00:10:49.515505152 before mission_end) WARNING 2025-06-26 06:06:15,761 resample.py get_mission_start_end():1156 [1] Instrument hs2 has a gap > 5 minutes at the end of the mission: 0 days 00:10:49.515505152 INFO 2025-06-26 06:06:15,763 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-10-21T17:17:35.215772672 to 2004-10-21T22:39:31.762498432 (0 days 00:00:00 before mission_end) INFO 2025-06-26 06:06:15,764 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-10-21T17:17:44.145160960 to 2004-10-21T17:22:22.326104192 (0 days 05:17:09.436394240 before mission_end) WARNING 2025-06-26 06:06:15,765 resample.py get_mission_start_end():1156 [1] Instrument ctd2 has a gap > 5 minutes at the end of the mission: 0 days 05:17:09.436394240 INFO 2025-06-26 06:06:15,766 resample.py get_mission_start_end():1145 [1] isus : 2004-10-21T17:18:40.241318016 to 2004-10-21T22:39:31.422521856 (0 days 00:00:00.339976576 before mission_end) INFO 2025-06-26 06:06:15,767 resample.py get_mission_start_end():1145 [1] biolume : 2004-10-21T17:17:23.476542464 to 2004-10-21T22:39:30.822528640 (0 days 00:00:00.939969792 before mission_end) INFO 2025-06-26 06:06:15,769 resample.py get_mission_start_end():1145 [1] tailcone : 2004-10-21T17:17:24.366515840 to 2004-10-21T22:39:31.742499840 (0 days 00:00:00.019998592 before mission_end) INFO 2025-06-26 06:06:15,770 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_align.nc mission netCDF file INFO 2025-06-26 06:06:15,770 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:15,982 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,020 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,057 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,094 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,125 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,125 resample.py resample_variable():1038 [1] Padding hs2_bbp470 with 0 days 00:10:49.515505152 of NaNs to the end of mission INFO 2025-06-26 06:06:16,160 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,161 resample.py resample_variable():1038 [1] Padding hs2_bbp676 with 0 days 00:10:49.515505152 of NaNs to the end of mission INFO 2025-06-26 06:06:16,194 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,194 resample.py resample_variable():1038 [1] Padding hs2_fl676 with 0 days 00:10:49.515505152 of NaNs to the end of mission INFO 2025-06-26 06:06:16,227 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,256 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,294 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,323 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,352 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,381 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,411 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,441 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,470 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,482 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,482 resample.py resample_variable():1038 [1] Padding ctd2_temperature with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,494 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,494 resample.py resample_variable():1038 [1] Padding ctd2_conductivity with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,503 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,503 resample.py resample_variable():1038 [1] Padding ctd2_salinity with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,513 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,513 resample.py resample_variable():1038 [1] Padding ctd2_temperature_onboard with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,523 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,524 resample.py resample_variable():1038 [1] Padding ctd2_conductivity_onboard with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,534 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,534 resample.py resample_variable():1038 [1] Padding ctd2_flow2 with 0 days 05:17:09.436394240 of NaNs to the end of mission INFO 2025-06-26 06:06:16,548 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,580 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,593 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,609 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,644 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 06:06:16,853 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_1S.nc INFO 2025-06-26 06:06:18,816 create_products.py gulper_odv():401 [1] No gulper times found for 2004.295.03 INFO 2025-06-26 06:06:18,816 process.py archive():337 [1] Archiving steps for 2004.295.03 INFO 2025-06-26 06:06:18,817 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03, BASE_PATH = /data/auv_data INFO 2025-06-26 06:06:18,818 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 06:06:18,820 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.295.03_1S.nc INFO 2025-06-26 06:06:18,845 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:06:18,847 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.295.03_cal.nc INFO 2025-06-26 06:06:18,921 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:06:18,922 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.295.03_align.nc INFO 2025-06-26 06:06:18,993 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:06:19,022 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,028 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,034 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,055 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,109 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,116 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,137 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,160 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,223 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004295/2004.295.03 done. INFO 2025-06-26 06:06:19,223 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 06:06:19,223 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.295.03/dorado_2004.295.03_processing.log /Volumes/AUVCTD/surveys/2004/netcdf