INFO 2025-06-26 12:25:21,999 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 12:25:21,999 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled files exist in archive, but not processed by reprocess_surveys.m - ctdToUse = ctd1 INFO 2025-06-26 12:25:21,999 process.py process_mission():449 [1] Processing AUVCTD mission 2006.346.03 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:25:21,999 process.py download_process():165 [1] Download and processing steps for 2006.346.03 INFO 2025-06-26 12:25:21,999 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006346/2006.346.03 INFO 2025-06-26 12:25:21,999 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006346/2006.346.03 to /data/auv_data/dorado/missionlogs/2006.346.03 INFO 2025-06-26 12:25:24,408 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.346.03 INFO 2025-06-26 12:25:24,408 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/ctdDriver.log (5214395 bytes) INFO 2025-06-26 12:25:24,772 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.346.03/ctdDriver.log: [ 231 821 999 3194 3201 3347 4853 5350 7511 16629 16897 20344 29563 31452 39531 40607 40678 47216] INFO 2025-06-26 12:25:24,786 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/ctdDriver2.log (5214829 bytes) INFO 2025-06-26 12:25:25,152 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.346.03/ctdDriver2.log: [ 822 1000 3202 3349 4837 4854 5351 7322 11119 16631 20346 25012 25339 25595 29566 31455 39535 40611 47221] INFO 2025-06-26 12:25:25,170 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/gps.log (44492 bytes) INFO 2025-06-26 12:25:25,183 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/hydroscatlog.log (3559574 bytes) INFO 2025-06-26 12:25:25,614 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.346.03/hydroscatlog.log: [ 8 37 102 112 525 832 912 1119 1320 1520 1868 1942 2188 3433 3638 3897 4915 4998 5091 5095 5319 5845 6065 6257 6548 7314 7405 7595 10441 10903 12310 13607 13865 15709 16287 16708 16736 16976 19305 21971 23004 29424 29638 29722 31527 35268 37328 37513 37648 40677 41320 42380 43151 48174 48177 49491 53927 55679 56189 56579] INFO 2025-06-26 12:25:25,623 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/navigation.log (17441942 bytes) INFO 2025-06-26 12:25:26,899 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/isuslog.log (356213 bytes) INFO 2025-06-26 12:25:26,937 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.346.03/isuslog.log: [1 2 3 4 5 7 8 9] INFO 2025-06-26 12:25:26,938 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/parosci.log (7649894 bytes) INFO 2025-06-26 12:25:27,573 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.346.03/parosci.log: [ 2 3 4 17 18 19 25 26 30 34 35 62 151 152 281 282 284 287 289 325 884 1159 1160 1314 1381 1383 1384 1453 1454 1456 1769 1956 2270 2275 2488 2489 2747 2748 2940 3039 3040 3041 3577 3578 4112 4143 4144 4254 5039 5205 5237 5238 5883 6004 6053 6240 6241 6252 6395 6397 6398 6399 6540 6541 6542 7644 8609 8610 8805 8908 9199 9200 9209 9211 9573 9574 9576 9761 9762 11302 11303 11304 11472 11732 11733 11734 13197 13199 13206 13208 13418 13419 13666 13667 13677 13678 14280 14281 14282 14284 15376 15377 15696 16284 16286 16802 16803 16804 17297 19638 20073 20389 20391 21797 21798 22127 22128 26271 26272 29281 29706 29707 29871 30023 30025 30026 32375 32590 32592 33050 33051 34576 34577 34578 36533 36535 37228 37229 38209 39125 40760 40761 41403 42194 42195 43746 44560 44944 44945 45589 45590 48776 51857 51858 51859 56513 56514 56515 61792 62136 62137 62913 66863 66864 67286 68956 68957 71205 71206 71207 74092 75643 77776 77777 77779 79056 84694 85795 85796 85797 88607 88608 88633 88634 89135 93221 93222 94757 94758 96473 97899 100800 100801 100802 101166 106412 109298 115947 115948 121467 121469 121470 127066 127067 129460 129461 129463 132994 133059 133060 138946 139841 146350 146351 149606 149608 151738 152023 152024 158961] INFO 2025-06-26 12:25:27,599 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/tailCone.log (3546571 bytes) INFO 2025-06-26 12:25:28,040 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.346.03/biolume.log (4040428 bytes) INFO 2025-06-26 12:25:28,430 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 12:25:28,653 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.24 seconds WARNING 2025-06-26 12:25:28,653 process.py download_process():196 [1] No lopc.bin file for 2006.346.03 INFO 2025-06-26 12:25:28,653 process.py calibrate():227 [1] Calibration steps for 2006.346.03 INFO 2025-06-26 12:25:28,802 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 12:25:28,804 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:25:30,303 calibrate.py _nudge_pos():1806 [1] 184: 0.160 -0.0003593 -0.0001022 2197 7.41 -7.199 -2.555 2006-12-12T18:36:35.320827392 INFO 2025-06-26 12:25:30,584 calibrate.py _nudge_pos():1806 [1] 214: 0.170 0.0000250 0.0000378 30 0.10 38.475 72.385 2006-12-12T18:37:10.318429952 INFO 2025-06-26 12:25:31,330 calibrate.py _nudge_pos():1806 [1] 292: 0.180 -0.0023713 0.0040774 11011 36.83 -9.561 20.514 2006-12-12T19:15:17.311760128 INFO 2025-06-26 12:25:31,997 calibrate.py _nudge_pos():1806 [1] 362: 0.170 -0.0029571 0.0041588 11453 38.25 -11.481 20.149 2006-12-12T19:54:41.319814400 INFO 2025-06-26 12:25:32,442 calibrate.py _nudge_pos():1806 [1] 409: 0.170 -0.0036271 0.0040415 11575 38.63 -13.941 19.386 2006-12-12T20:34:05.317869312 INFO 2025-06-26 12:25:32,970 calibrate.py _nudge_pos():1806 [1] 463: 0.180 -0.0030142 0.0032947 12113 40.41 -11.073 15.107 2006-12-12T21:15:23.318114816 INFO 2025-06-26 12:25:33,486 calibrate.py _nudge_pos():1806 [1] 516: 0.180 -0.0017216 0.0024865 11519 38.43 -6.651 11.989 2006-12-12T21:54:41.316580864 INFO 2025-06-26 12:25:34,211 calibrate.py _nudge_pos():1806 [1] 592: 0.180 -0.0011312 0.0023721 11196 37.35 -4.496 11.769 2006-12-12T22:33:17.317924096 INFO 2025-06-26 12:25:34,344 calibrate.py _nudge_pos():1862 [1] 572: - - - 4 0.01 - - INFO 2025-06-26 12:25:34,344 calibrate.py _nudge_pos():1868 [1] Points in final series = 73898 WARNING 2025-06-26 12:25:36,920 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 12:25:44,682 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:25:48,890 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:25:49,335 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:25:49,337 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.346.03/ctd1.nc WARNING 2025-06-26 12:25:49,339 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (1784) ctd1_salinity values found outside of range. This may indicate a problem with the ctd1 data. INFO 2025-06-26 12:25:49,339 calibrate.py _range_qc_combined_nc():898 [1] Setting 1784 ctd1_salinity values to NaN INFO 2025-06-26 12:25:49,339 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 12:25:49,339 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:25:52,597 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 24 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:25:53,038 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 24 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:25:53,040 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.346.03/ctd2.nc INFO 2025-06-26 12:25:53,041 calibrate.py _range_qc_combined_nc():898 [1] Setting 93 ctd2_salinity values to NaN INFO 2025-06-26 12:25:53,042 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 12:25:53,042 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 12:25:53,580 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 12:25:54,286 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 888430 888431 888432] INFO 2025-06-26 12:25:54,418 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 12:25:54,424 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 12:25:54,424 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.346.03 ERROR 2025-06-26 12:25:54,424 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.346.03 INFO 2025-06-26 12:25:54,485 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_cal.nc INFO 2025-06-26 12:25:59,123 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 12:25:59,127 process.py align():251 [1] Alignment steps for 2006.346.03 INFO 2025-06-26 12:25:59,156 align.py process_cal():139 [1] Processing dorado_2006.346.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.346.03 INFO 2025-06-26 12:25:59,178 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:25:59,181 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:25:59,234 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:25:59,237 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:25:59,290 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:25:59,294 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:25:59,326 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:25:59,326 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:25:59,347 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:25:59,351 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:25:59,405 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:25:59,409 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:25:59,455 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:25:59,459 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:25:59,505 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:25:59,508 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:25:59,554 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,558 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,605 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,609 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,655 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,658 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,706 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,710 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,755 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,759 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,806 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,810 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,856 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,860 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,907 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,911 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:25:59,957 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:25:59,961 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,014 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,017 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,065 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,069 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,116 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,120 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,167 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,171 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,217 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,221 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,267 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,271 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,318 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,322 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,370 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.346.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:26:00,374 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:26:00,434 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:26:00,476 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:26:00,519 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:26:00,563 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 12:26:00,608 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:26:00,646 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_align.nc INFO 2025-06-26 12:26:00,716 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 12:26:00,718 process.py resample():273 [1] Resampling steps for 2006.346.03 INFO 2025-06-26 12:26:00,719 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:26:00,743 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_align.nc mission netCDF file INFO 2025-06-26 12:26:00,749 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_align.nc mission netCDF file INFO 2025-06-26 12:26:00,750 resample.py get_mission_start_end():1145 [1] navigation: 2006-12-12T18:26:42.211458304 to 2006-12-12T22:33:31.116978688 (0 days 00:00:00.069995008 before mission_end) INFO 2025-06-26 12:26:00,752 resample.py get_mission_start_end():1145 [1] hs2 : 2006-12-12T18:26:17.193171968 to 2006-12-12T22:33:31.166975232 (0 days 00:00:00.019998464 before mission_end) INFO 2025-06-26 12:26:00,754 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-12-12T18:26:36.761831424 to 2006-12-12T22:33:31.186973696 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:26:00,755 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-12-12T18:26:36.751832320 to 2006-12-12T22:33:31.156975872 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 12:26:00,757 resample.py get_mission_start_end():1145 [1] isus : 2006-12-12T18:27:10.009553920 to 2006-12-12T22:33:31.026984704 (0 days 00:00:00.159988992 before mission_end) INFO 2025-06-26 12:26:00,758 resample.py get_mission_start_end():1145 [1] biolume : 2006-12-12T18:26:09.793644544 to 2006-12-12T22:33:29.727039488 (0 days 00:00:01.459934208 before mission_end) INFO 2025-06-26 12:26:00,760 resample.py get_mission_start_end():1145 [1] tailcone : 2006-12-12T18:26:10.273646080 to 2006-12-12T22:33:31.046983424 (0 days 00:00:00.139990272 before mission_end) INFO 2025-06-26 12:26:00,760 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_align.nc mission netCDF file INFO 2025-06-26 12:26:00,761 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:00,929 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:00,962 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:00,992 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,023 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,052 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,079 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,104 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,130 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,153 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,181 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,205 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,228 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,252 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,276 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,299 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,323 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,350 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,376 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,401 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,426 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,452 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,477 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,491 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,504 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,516 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,530 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,558 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:26:01,734 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_1S.nc INFO 2025-06-26 12:26:03,462 create_products.py gulper_odv():401 [1] No gulper times found for 2006.346.03 INFO 2025-06-26 12:26:03,462 process.py archive():337 [1] Archiving steps for 2006.346.03 INFO 2025-06-26 12:26:03,462 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03, BASE_PATH = /data/auv_data INFO 2025-06-26 12:26:03,462 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 12:26:03,464 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.346.03_1S.nc INFO 2025-06-26 12:26:03,482 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:26:03,484 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.346.03_cal.nc INFO 2025-06-26 12:26:03,552 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:26:03,553 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.346.03_align.nc INFO 2025-06-26 12:26:03,615 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:26:03,635 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,654 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,657 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,673 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,719 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,725 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,751 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,767 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,809 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006346/2006.346.03 done. INFO 2025-06-26 12:26:03,809 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:26:03,810 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.346.03/dorado_2006.346.03_processing.log /Volumes/AUVCTD/surveys/2006/netcdf