INFO 2025-06-26 10:35:52,838 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 10:35:52,838 process.py process_mission():434 [1] dorado_info[mission]["comment"] = ctdToUse = ctd1 INFO 2025-06-26 10:35:52,838 process.py process_mission():449 [1] Processing AUVCTD mission 2005.123.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:35:52,838 process.py download_process():165 [1] Download and processing steps for 2005.123.01 INFO 2025-06-26 10:35:52,838 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005123/2005.123.01 INFO 2025-06-26 10:35:52,838 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005123/2005.123.01 to /data/auv_data/dorado/missionlogs/2005.123.01 INFO 2025-06-26 10:35:54,450 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.123.01 INFO 2025-06-26 10:35:54,450 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/ctdDriver.log (8364795 bytes) INFO 2025-06-26 10:35:55,095 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.123.01/ctdDriver.log: [750] INFO 2025-06-26 10:35:55,121 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/ctdDriver2.log (8364613 bytes) INFO 2025-06-26 10:35:55,755 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/gps.log (64292 bytes) INFO 2025-06-26 10:35:55,770 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/hydroscatlog.log (5704934 bytes) INFO 2025-06-26 10:35:56,464 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.123.01/hydroscatlog.log: [24375] INFO 2025-06-26 10:35:56,479 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/navigation.log (28032914 bytes) INFO 2025-06-26 10:35:58,536 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/isuslog.log (474581 bytes) INFO 2025-06-26 10:35:58,587 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/parosci.log (12208118 bytes) INFO 2025-06-26 10:35:59,597 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.123.01/parosci.log: [ 4112 15995 102716 233787 233788 233790 233791] INFO 2025-06-26 10:35:59,632 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/tailCone.log (5707531 bytes) INFO 2025-06-26 10:36:00,349 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.123.01/biolume.log (6472380 bytes) INFO 2025-06-26 10:36:00,999 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:36:01,333 logs2netcdfs.py download_process_logs():807 [1] Time to process: 6.88 seconds WARNING 2025-06-26 10:36:01,333 process.py download_process():196 [1] No lopc.bin file for 2005.123.01 INFO 2025-06-26 10:36:01,334 process.py calibrate():227 [1] Calibration steps for 2005.123.01 INFO 2025-06-26 10:36:01,534 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 10:36:01,536 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:36:03,117 calibrate.py _nudge_pos():1806 [1] 176: 0.050 0.0000336 0.0000162 1510 5.03 0.989 0.598 2005-05-03T15:32:55.041246208 INFO 2025-06-26 10:36:04,043 calibrate.py _nudge_pos():1806 [1] 271: 0.070 -0.0008607 0.0002238 10233 34.13 -3.737 1.215 2005-05-03T16:08:37.034509696 INFO 2025-06-26 10:36:04,623 calibrate.py _nudge_pos():1806 [1] 331: 0.070 -0.0007684 0.0002853 10739 35.81 -3.180 1.476 2005-05-03T16:45:25.033251328 INFO 2025-06-26 10:36:05,215 calibrate.py _nudge_pos():1806 [1] 390: 0.070 -0.0011839 0.0000231 11138 37.13 -4.728 0.115 2005-05-03T17:23:31.036649472 INFO 2025-06-26 10:36:05,793 calibrate.py _nudge_pos():1806 [1] 450: 0.060 -0.0015571 -0.0005707 11854 39.51 -5.845 -2.677 2005-05-03T18:04:01.040182784 INFO 2025-06-26 10:36:06,348 calibrate.py _nudge_pos():1806 [1] 506: 0.060 -0.0008683 -0.0007201 10615 35.38 -3.642 -3.771 2005-05-03T18:40:19.040979328 INFO 2025-06-26 10:36:06,907 calibrate.py _nudge_pos():1806 [1] 563: 0.070 -0.0028502 -0.0007544 10819 36.06 -11.732 -3.876 2005-05-03T19:17:19.038899200 INFO 2025-06-26 10:36:07,361 calibrate.py _nudge_pos():1806 [1] 608: 0.070 -0.0000008 0.0000005 15 0.05 -2.501 2.151 2005-05-03T19:18:06.035679616 INFO 2025-06-26 10:36:07,390 calibrate.py _nudge_pos():1806 [1] 611: 0.070 -0.0014288 -0.0004400 4735 15.78 -13.443 -5.167 2005-05-03T19:33:55.040668544 INFO 2025-06-26 10:36:08,014 calibrate.py _nudge_pos():1806 [1] 674: 0.070 -0.0007342 -0.0012262 10607 35.36 -3.083 -6.425 2005-05-03T20:10:19.041053952 INFO 2025-06-26 10:36:08,548 calibrate.py _nudge_pos():1806 [1] 728: 0.070 0.0000205 -0.0000017 20 0.06 48.163 -5.082 2005-05-03T20:11:16.037149696 INFO 2025-06-26 10:36:08,607 calibrate.py _nudge_pos():1806 [1] 734: 0.060 0.0000921 -0.0007479 10400 34.66 0.395 -3.998 2005-05-03T20:46:01.034317440 INFO 2025-06-26 10:36:08,822 calibrate.py _nudge_pos():1806 [1] 756: 0.070 0.0000115 0.0001094 35 0.11 15.080 178.696 2005-05-03T20:46:29.042398976 INFO 2025-06-26 10:36:09,247 calibrate.py _nudge_pos():1806 [1] 799: 0.070 0.0003904 0.0002668 11228 37.43 1.550 1.321 2005-05-03T21:24:37.035660544 INFO 2025-06-26 10:36:09,755 calibrate.py _nudge_pos():1806 [1] 850: 0.080 0.0004180 0.0002602 10610 35.36 1.757 1.364 2005-05-03T22:00:49.036868352 INFO 2025-06-26 10:36:10,059 calibrate.py _nudge_pos():1862 [1] 859: - - - 4 0.01 - - INFO 2025-06-26 10:36:10,059 calibrate.py _nudge_pos():1868 [1] Points in final series = 118775 WARNING 2025-06-26 10:36:14,173 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:36:26,803 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 2 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:36:33,615 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 17 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:36:34,359 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 17 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:36:34,361 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.123.01/ctd1.nc INFO 2025-06-26 10:36:34,362 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:36:34,362 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 10:36:34,363 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:36:35,233 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 17 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:36:35,948 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 17 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:36:35,950 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.123.01/ctd2.nc INFO 2025-06-26 10:36:35,951 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:36:35,952 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 10:36:35,952 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:36:35,987 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:36:37,060 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 536400 537000 1029480 1311900] INFO 2025-06-26 10:36:37,279 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:36:37,284 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 10:36:37,285 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.123.01 ERROR 2025-06-26 10:36:37,285 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.123.01 INFO 2025-06-26 10:36:37,379 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_cal.nc INFO 2025-06-26 10:36:41,898 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 10:36:41,903 process.py align():251 [1] Alignment steps for 2005.123.01 INFO 2025-06-26 10:36:41,933 align.py process_cal():139 [1] Processing dorado_2005.123.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.123.01 INFO 2025-06-26 10:36:41,968 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:36:41,972 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:36:42,056 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:36:42,061 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:36:42,143 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:36:42,148 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:36:42,198 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:36:42,198 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:36:42,230 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:36:42,236 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:36:42,317 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:36:42,322 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,394 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:36:42,398 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,472 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:36:42,476 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,549 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,554 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,628 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,633 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,708 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,713 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,789 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,793 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,866 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,871 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:42,946 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:42,952 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,052 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,058 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,143 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,147 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,221 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,226 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,301 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,306 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,378 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,383 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,461 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,468 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,550 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,555 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,630 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,637 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,716 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,721 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,796 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,801 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,874 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.123.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:36:43,878 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:36:43,972 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:36:44,036 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:36:44,099 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:36:44,166 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:36:44,237 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:36:44,295 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_align.nc INFO 2025-06-26 10:36:44,384 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 10:36:44,386 process.py resample():273 [1] Resampling steps for 2005.123.01 INFO 2025-06-26 10:36:44,387 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:36:44,413 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_align.nc mission netCDF file INFO 2025-06-26 10:36:44,419 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_align.nc mission netCDF file INFO 2025-06-26 10:36:44,421 resample.py get_mission_start_end():1145 [1] navigation: 2005-05-03T15:25:20.722369152 to 2005-05-03T22:01:19.834758528 (0 days 00:00:00.009999232 before mission_end) INFO 2025-06-26 10:36:44,423 resample.py get_mission_start_end():1145 [1] hs2 : 2005-05-03T15:25:02.673605632 to 2005-05-03T22:01:19.784761856 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:36:44,424 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-05-03T15:25:17.442593792 to 2005-05-03T22:01:19.844757760 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:36:44,426 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-05-03T15:25:17.422595200 to 2005-05-03T22:01:19.844757760 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:36:44,427 resample.py get_mission_start_end():1145 [1] isus : 2005-05-03T15:26:14.658674304 to 2005-05-03T22:01:19.234799616 (0 days 00:00:00.609958144 before mission_end) INFO 2025-06-26 10:36:44,429 resample.py get_mission_start_end():1145 [1] biolume : 2005-05-03T15:24:57.823903616 to 2005-05-03T22:01:19.234765312 (0 days 00:00:00.609992448 before mission_end) INFO 2025-06-26 10:36:44,430 resample.py get_mission_start_end():1145 [1] tailcone : 2005-05-03T15:24:58.213911040 to 2005-05-03T22:01:19.784761856 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:36:44,431 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_align.nc mission netCDF file INFO 2025-06-26 10:36:44,432 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,759 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,803 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,847 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,892 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,931 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:44,968 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,007 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,044 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,078 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,112 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,146 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,180 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,214 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,248 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,282 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,316 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,352 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,389 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,427 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,463 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,500 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,539 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,557 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,572 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,585 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,602 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,644 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:36:45,883 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_1S.nc INFO 2025-06-26 10:36:47,455 create_products.py gulper_odv():401 [1] No gulper times found for 2005.123.01 INFO 2025-06-26 10:36:47,455 process.py archive():337 [1] Archiving steps for 2005.123.01 INFO 2025-06-26 10:36:47,455 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01, BASE_PATH = /data/auv_data INFO 2025-06-26 10:36:47,456 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:36:47,457 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.123.01_1S.nc INFO 2025-06-26 10:36:47,479 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:36:47,480 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.123.01_cal.nc INFO 2025-06-26 10:36:47,585 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:36:47,586 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.123.01_align.nc INFO 2025-06-26 10:36:47,691 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:36:47,720 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,748 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,752 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,771 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,851 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,859 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,900 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,926 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,997 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005123/2005.123.01 done. INFO 2025-06-26 10:36:47,998 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:36:47,998 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.123.01/dorado_2005.123.01_processing.log /Volumes/AUVCTD/surveys/2005/netcdf