INFO 2025-06-26 10:37:37,971 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 10:37:37,971 process.py process_mission():434 [1] dorado_info[mission]["comment"] = ctdToUse = ctd1 INFO 2025-06-26 10:37:37,971 process.py process_mission():449 [1] Processing BIOLUME mission 2005.133.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:37:37,971 process.py download_process():165 [1] Download and processing steps for 2005.133.00 INFO 2025-06-26 10:37:37,971 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005133/2005.133.00 INFO 2025-06-26 10:37:37,971 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005133/2005.133.00 to /data/auv_data/dorado/missionlogs/2005.133.00 INFO 2025-06-26 10:37:39,905 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.133.00 INFO 2025-06-26 10:37:39,906 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/ctdDriver.log (9858947 bytes) INFO 2025-06-26 10:37:40,678 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/ctdDriver2.log (9859029 bytes) INFO 2025-06-26 10:37:41,565 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/gps.log (74588 bytes) INFO 2025-06-26 10:37:41,581 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/hydroscatlog.log (6725594 bytes) INFO 2025-06-26 10:37:42,358 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.133.00/hydroscatlog.log: [82401 82402] INFO 2025-06-26 10:37:42,376 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/navigation.log (33055466 bytes) INFO 2025-06-26 10:37:44,767 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/isuslog.log (574869 bytes) INFO 2025-06-26 10:37:44,824 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.133.00/isuslog.log: [1 2 3 4 5 6 7] INFO 2025-06-26 10:37:44,826 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/parosci.log (14394278 bytes) INFO 2025-06-26 10:37:45,987 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.133.00/parosci.log: [ 13840 13841 13842 74555 74556 111824 205627 205628 205629 205631 205632 237332] INFO 2025-06-26 10:37:46,025 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/tailCone.log (6729019 bytes) INFO 2025-06-26 10:37:46,842 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.133.00/biolume.log (7630012 bytes) INFO 2025-06-26 10:37:47,603 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:37:48,102 logs2netcdfs.py download_process_logs():807 [1] Time to process: 8.20 seconds WARNING 2025-06-26 10:37:48,103 process.py download_process():196 [1] No lopc.bin file for 2005.133.00 INFO 2025-06-26 10:37:48,103 process.py calibrate():227 [1] Calibration steps for 2005.133.00 INFO 2025-06-26 10:37:48,318 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 10:37:48,319 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:37:49,808 calibrate.py _nudge_pos():1806 [1] 170: 0.200 0.0000069 -0.0000154 15 0.05 21.923 -61.252 2005-05-13T03:01:05.894034432 INFO 2025-06-26 10:37:49,866 calibrate.py _nudge_pos():1806 [1] 176: 0.010 0.0000489 0.0000825 2769 9.23 0.784 1.656 2005-05-13T03:10:25.085726976 INFO 2025-06-26 10:37:50,728 calibrate.py _nudge_pos():1806 [1] 264: 0.200 -0.0005665 0.0003209 10871 36.24 -2.316 1.641 2005-05-13T03:48:06.890782848 INFO 2025-06-26 10:37:51,098 calibrate.py _nudge_pos():1806 [1] 301: 0.010 -0.0006279 0.0003720 11130 37.10 -2.509 1.858 2005-05-13T04:25:49.085811840 INFO 2025-06-26 10:37:51,693 calibrate.py _nudge_pos():1806 [1] 362: 0.200 -0.0004723 -0.0001467 11879 39.59 -1.769 -0.687 2005-05-13T05:06:24.888947968 INFO 2025-06-26 10:37:52,358 calibrate.py _nudge_pos():1806 [1] 430: 0.010 -0.0009498 -0.0009464 11153 37.18 -3.789 -4.717 2005-05-13T05:44:43.091510272 INFO 2025-06-26 10:37:52,378 calibrate.py _nudge_pos():1806 [1] 432: 0.200 0.0000411 0.0000798 14 0.04 140.765 341.338 2005-05-13T05:44:46.891249920 INFO 2025-06-26 10:37:52,970 calibrate.py _nudge_pos():1806 [1] 493: 0.010 -0.0016398 -0.0004931 10955 36.53 -6.661 -2.501 2005-05-13T06:22:19.086963840 INFO 2025-06-26 10:37:53,469 calibrate.py _nudge_pos():1806 [1] 544: 0.020 -0.0023888 -0.0007280 10970 36.56 -9.699 -3.690 2005-05-13T06:59:43.093239040 INFO 2025-06-26 10:37:53,877 calibrate.py _nudge_pos():1806 [1] 585: 0.010 0.0000016 -0.0000128 15 0.05 5.189 -50.972 2005-05-13T07:00:26.090293376 INFO 2025-06-26 10:37:54,206 calibrate.py _nudge_pos():1806 [1] 618: 0.020 -0.0003564 -0.0004605 4605 15.35 -3.447 -5.560 2005-05-13T07:16:19.085008896 INFO 2025-06-26 10:37:54,691 calibrate.py _nudge_pos():1806 [1] 667: 0.010 0.0017380 -0.0026672 11100 37.00 6.977 -13.359 2005-05-13T07:54:07.089639936 INFO 2025-06-26 10:37:55,171 calibrate.py _nudge_pos():1806 [1] 715: 0.020 0.0009617 -0.0012543 11045 36.81 3.881 -6.313 2005-05-13T08:31:43.085093760 INFO 2025-06-26 10:37:55,625 calibrate.py _nudge_pos():1806 [1] 761: 0.020 0.0004394 -0.0000296 10602 35.35 1.847 -0.155 2005-05-13T09:07:49.086712320 INFO 2025-06-26 10:37:56,150 calibrate.py _nudge_pos():1806 [1] 813: 0.010 0.0004887 0.0002507 10544 35.15 2.067 1.322 2005-05-13T09:43:49.088742016 INFO 2025-06-26 10:37:56,590 calibrate.py _nudge_pos():1806 [1] 857: 0.010 0.0001632 -0.0003112 45 0.15 165.371 -393.248 2005-05-13T09:44:42.085111680 INFO 2025-06-26 10:37:56,622 calibrate.py _nudge_pos():1806 [1] 860: 0.190 0.0006968 0.0005205 11544 38.48 2.692 2.507 2005-05-13T10:23:13.086797184 INFO 2025-06-26 10:37:57,149 calibrate.py _nudge_pos():1806 [1] 912: 0.010 0.0001595 0.0000936 2595 8.65 2.743 2.005 2005-05-13T10:32:43.087749504 INFO 2025-06-26 10:37:57,806 calibrate.py _nudge_pos():1806 [1] 974: 0.010 0.0001896 0.0001562 3288 10.98 2.568 2.636 2005-05-13T10:44:43.088425856 INFO 2025-06-26 10:37:58,306 calibrate.py _nudge_pos():1862 [1] 1002: - - - 1 0.00 - - INFO 2025-06-26 10:37:58,306 calibrate.py _nudge_pos():1868 [1] Points in final series = 139917 WARNING 2025-06-26 10:38:03,341 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:38:18,180 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:19,257 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:20,138 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:20,141 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.133.00/ctd1.nc INFO 2025-06-26 10:38:20,142 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 10:38:20,143 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 10:38:20,143 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:38:21,155 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:22,003 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:22,005 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.133.00/ctd2.nc INFO 2025-06-26 10:38:22,007 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd2_salinity values to NaN INFO 2025-06-26 10:38:22,007 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 10:38:22,007 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:38:22,879 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:38:24,153 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 1980 48120 218100 218101 218102 218103 218104 218105 218106 218107 218108 218109 234300 236040 349860 377820 459540 459780 461460 491220 491221 491222 491223 491224 491225 491226 491227 491228 491229 491230 491231 491232 491233 491234 491235 491236 491237 491238 491239 491240 491241 491242 491243 491244 491245 491246 491247 491248 491249 491250 491251 491252 491253 491254 491255 1023300 1333560 1333561] INFO 2025-06-26 10:38:24,409 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:38:24,414 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 10:38:24,415 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.133.00 ERROR 2025-06-26 10:38:24,415 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.133.00 INFO 2025-06-26 10:38:24,526 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_cal.nc INFO 2025-06-26 10:38:24,639 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 10:38:24,643 process.py align():251 [1] Alignment steps for 2005.133.00 INFO 2025-06-26 10:38:24,675 align.py process_cal():139 [1] Processing dorado_2005.133.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.133.00 INFO 2025-06-26 10:38:24,720 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:24,724 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:24,824 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:24,829 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:24,927 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:24,933 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:24,992 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:38:24,992 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:38:25,032 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:25,038 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:25,136 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:25,141 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,223 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:25,228 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,312 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:25,317 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,400 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,405 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,497 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,502 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,584 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,589 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,672 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,677 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,760 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,765 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,848 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,853 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:25,936 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:25,942 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,028 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,033 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,123 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,128 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,212 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,217 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,301 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,306 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,390 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,395 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,479 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,485 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,571 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,576 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,660 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,665 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,748 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,753 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,838 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.133.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:26,842 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:26,947 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 10:38:27,021 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 10:38:27,093 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 10:38:27,170 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:38:27,250 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:27,317 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_align.nc INFO 2025-06-26 10:38:27,411 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 10:38:27,414 process.py resample():273 [1] Resampling steps for 2005.133.00 INFO 2025-06-26 10:38:27,414 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:38:27,441 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_align.nc mission netCDF file INFO 2025-06-26 10:38:27,448 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_align.nc mission netCDF file INFO 2025-06-26 10:38:27,449 resample.py get_mission_start_end():1145 [1] navigation: 2005-05-13T02:58:36.494268928 to 2005-05-13T10:45:32.285055872 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:38:27,451 resample.py get_mission_start_end():1145 [1] hs2 : 2005-05-13T02:58:18.965469568 to 2005-05-13T10:45:32.105068160 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 10:38:27,453 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-05-13T02:58:42.383865344 to 2005-05-13T10:45:32.235059200 (0 days 00:00:00.049996672 before mission_end) INFO 2025-06-26 10:38:27,455 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-05-13T02:58:42.703843584 to 2005-05-13T10:45:32.275056384 (0 days 00:00:00.009999488 before mission_end) INFO 2025-06-26 10:38:27,456 resample.py get_mission_start_end():1145 [1] isus : 2005-05-13T02:59:15.751579520 to 2005-05-13T10:45:31.085138048 (0 days 00:00:01.199917824 before mission_end) INFO 2025-06-26 10:38:27,458 resample.py get_mission_start_end():1145 [1] biolume : 2005-05-13T02:58:14.055771776 to 2005-05-13T10:45:31.065105152 (0 days 00:00:01.219950720 before mission_end) INFO 2025-06-26 10:38:27,459 resample.py get_mission_start_end():1145 [1] tailcone : 2005-05-13T02:58:14.355785600 to 2005-05-13T10:45:32.155064576 (0 days 00:00:00.129991296 before mission_end) INFO 2025-06-26 10:38:27,460 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_align.nc mission netCDF file INFO 2025-06-26 10:38:27,461 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,756 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,806 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,854 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,903 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,949 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:27,993 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,037 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,080 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,121 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,162 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,201 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,240 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,283 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,323 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,362 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,401 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,444 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,487 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,530 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,572 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,613 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,653 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,672 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,687 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,702 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,719 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:28,766 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:29,019 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_1S.nc INFO 2025-06-26 10:38:30,738 create_products.py gulper_odv():401 [1] No gulper times found for 2005.133.00 INFO 2025-06-26 10:38:30,738 process.py archive():337 [1] Archiving steps for 2005.133.00 INFO 2025-06-26 10:38:30,738 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:38:30,739 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:38:30,740 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.133.00_1S.nc INFO 2025-06-26 10:38:30,765 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:30,766 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.133.00_cal.nc INFO 2025-06-26 10:38:30,892 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:30,893 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.133.00_align.nc INFO 2025-06-26 10:38:31,011 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:31,045 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,074 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,078 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,100 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,195 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,202 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,242 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,269 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,349 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005133/2005.133.00 done. INFO 2025-06-26 10:38:31,349 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:38:31,349 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.133.00/dorado_2005.133.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf