INFO 2025-06-26 05:50:52,551 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 05:50:52,552 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Not processed 11/1/04 - Re-portaled 8/11/05hydroscatlog.log is 0 size. - ctdToUse = ctd1 INFO 2025-06-26 05:50:52,552 process.py process_mission():449 [1] Processing AUVCTD mission 2004.197.01 by user docker_user on host 671049448ece INFO 2025-06-26 05:50:52,552 process.py download_process():165 [1] Download and processing steps for 2004.197.01 INFO 2025-06-26 05:50:52,552 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004197/2004.197.01 INFO 2025-06-26 05:50:52,552 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004197/2004.197.01 to /data/auv_data/dorado/missionlogs/2004.197.01 INFO 2025-06-26 05:50:54,505 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.197.01 INFO 2025-06-26 05:50:54,505 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/ctdDriver.log (4073915 bytes) INFO 2025-06-26 05:50:54,835 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/ctdDriver2.log (4077341 bytes) INFO 2025-06-26 05:50:55,122 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2004.197.01/ctdDriver2.log: [7515] INFO 2025-06-26 05:50:55,134 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/gps.log (40964 bytes) INFO 2025-06-26 05:50:55,146 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/hydroscatlog.log (0 bytes) WARNING 2025-06-26 05:50:55,146 logs2netcdfs.py download_process_logs():790 [1] /data/auv_data/dorado/missionlogs/2004.197.01/hydroscatlog.log is empty INFO 2025-06-26 05:50:55,147 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/navigation.log (9024919 bytes) INFO 2025-06-26 05:50:55,818 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/isuslog.log (223029 bytes) INFO 2025-06-26 05:50:55,844 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/parosci.log (2782022 bytes) INFO 2025-06-26 05:50:56,081 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/tailCone.log (2781691 bytes) INFO 2025-06-26 05:50:56,423 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.197.01/biolume.log (3156156 bytes) INFO 2025-06-26 05:50:56,720 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:50:56,882 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.38 seconds WARNING 2025-06-26 05:50:56,882 process.py download_process():196 [1] No lopc.bin file for 2004.197.01 INFO 2025-06-26 05:50:56,882 process.py calibrate():227 [1] Calibration steps for 2004.197.01 INFO 2025-06-26 05:50:57,000 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 05:50:57,002 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:50:58,552 calibrate.py _nudge_pos():1806 [1] 181: 0.180 0.0056142 0.0027437 11350 37.83 22.040 13.439 2004-07-15T16:30:27.002177280 INFO 2025-06-26 05:50:59,146 calibrate.py _nudge_pos():1806 [1] 244: 0.190 0.0060311 -0.0012353 11477 38.26 23.407 -5.982 2004-07-15T17:09:45.000643456 INFO 2025-06-26 05:50:59,712 calibrate.py _nudge_pos():1806 [1] 305: 0.190 0.0052954 -0.0031111 11340 37.80 20.804 -15.252 2004-07-15T17:48:33.001164416 INFO 2025-06-26 05:51:00,354 calibrate.py _nudge_pos():1806 [1] 373: 0.190 0.0049134 -0.0021761 11455 38.18 19.107 -10.562 2004-07-15T18:27:50.999630464 INFO 2025-06-26 05:51:00,422 calibrate.py _nudge_pos():1806 [1] 380: 0.190 0.0049158 -0.0022025 14 0.04 16844.393 -9418.795 2004-07-15T18:27:59.999013888 INFO 2025-06-26 05:51:00,821 calibrate.py _nudge_pos():1806 [1] 422: 0.190 0.0015590 0.0002596 5720 19.06 12.142 2.523 2004-07-15T18:47:45.007835392 INFO 2025-06-26 05:51:00,860 calibrate.py _nudge_pos():1806 [1] 426: 0.180 0.0015624 0.0002200 65 0.21 1087.399 191.140 2004-07-15T18:48:01.006739328 INFO 2025-06-26 05:51:00,963 calibrate.py _nudge_pos():1806 [1] 436: 0.190 0.0000251 -0.0001315 285 0.95 3.937 -25.744 2004-07-15T18:49:07.002218240 INFO 2025-06-26 05:51:00,973 calibrate.py _nudge_pos():1806 [1] 437: 0.180 -0.0000667 -0.0002440 310 1.03 -9.616 -43.896 2004-07-15T18:50:09.007970560 INFO 2025-06-26 05:51:01,021 calibrate.py _nudge_pos():1806 [1] 442: 0.190 0.0002230 -0.0002650 230 0.76 43.377 -64.323 2004-07-15T18:50:59.004545664 INFO 2025-06-26 05:51:01,031 calibrate.py _nudge_pos():1806 [1] 443: 0.190 0.0001771 -0.0004641 170 0.56 46.684 -152.661 2004-07-15T18:51:33.002216576 INFO 2025-06-26 05:51:01,051 calibrate.py _nudge_pos():1806 [1] 445: 0.190 0.0001943 -0.0005024 115 0.38 75.932 -244.996 2004-07-15T18:51:57.000572672 INFO 2025-06-26 05:51:01,110 calibrate.py _nudge_pos():1806 [1] 451: 0.200 -0.0000655 -0.0004605 40 0.13 -74.756 -656.378 2004-07-15T18:52:09.999682176 INFO 2025-06-26 05:51:01,122 calibrate.py _nudge_pos():1806 [1] 452: 0.200 0.0001783 -0.0004991 14 0.04 610.870 -2134.174 2004-07-15T18:52:12.999476608 INFO 2025-06-26 05:51:01,133 calibrate.py _nudge_pos():1806 [1] 453: 0.200 0.0002008 -0.0005217 14 0.04 688.140 -2230.848 2004-07-15T18:52:15.999271168 INFO 2025-06-26 05:51:01,145 calibrate.py _nudge_pos():1806 [1] 454: 0.190 0.0003917 -0.0007885 594 1.98 29.422 -73.913 2004-07-15T18:54:15.001118848 INFO 2025-06-26 05:51:01,155 calibrate.py _nudge_pos():1806 [1] 455: 0.190 0.0004488 -0.0009786 420 1.40 47.709 -129.829 2004-07-15T18:55:39.005364224 INFO 2025-06-26 05:51:01,658 calibrate.py _nudge_pos():1806 [1] 508: 0.190 0.0000293 -0.0000435 65 0.21 20.422 -37.782 2004-07-15T18:56:44.000911744 INFO 2025-06-26 05:51:01,706 calibrate.py _nudge_pos():1806 [1] 513: 0.180 0.0000723 -0.0001060 255 0.85 12.670 -23.195 2004-07-15T18:57:39.007143552 INFO 2025-06-26 05:51:01,744 calibrate.py _nudge_pos():1806 [1] 517: 0.200 0.0002138 -0.0003703 615 2.05 15.512 -33.524 2004-07-15T18:59:44.998512512 INFO 2025-06-26 05:51:01,802 calibrate.py _nudge_pos():1806 [1] 523: 0.190 0.0002563 -0.0004999 205 0.68 55.972 -136.222 2004-07-15T19:00:31.005360896 INFO 2025-06-26 05:51:01,907 calibrate.py _nudge_pos():1806 [1] 534: 0.200 0.0002656 -0.0005436 105 0.35 113.745 -290.583 2004-07-15T19:01:02.003237504 INFO 2025-06-26 05:51:01,992 calibrate.py _nudge_pos():1806 [1] 543: 0.190 0.0000496 -0.0000708 260 0.86 8.526 -15.196 2004-07-15T19:02:01.999127424 INFO 2025-06-26 05:51:02,051 calibrate.py _nudge_pos():1806 [1] 549: 0.190 0.0000340 -0.0000509 129 0.43 11.841 -22.109 2004-07-15T19:02:33.007003264 INFO 2025-06-26 05:51:02,061 calibrate.py _nudge_pos():1806 [1] 550: 0.190 -0.0000334 -0.0000815 20 0.06 -78.244 -238.583 2004-07-15T19:02:37.006729088 INFO 2025-06-26 05:51:02,100 calibrate.py _nudge_pos():1806 [1] 554: 0.190 0.0000544 -0.0000564 15 0.05 173.120 -223.785 2004-07-15T19:02:43.006318080 INFO 2025-06-26 05:51:02,126 calibrate.py _nudge_pos():1862 [1] 535: - - - 12 0.04 - - INFO 2025-06-26 05:51:02,127 calibrate.py _nudge_pos():1868 [1] Points in final series = 57799 WARNING 2025-06-26 05:51:02,176 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:51:02,610 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:51:02,949 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:51:02,951 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.197.01/ctd1.nc INFO 2025-06-26 05:51:02,952 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:51:02,952 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 05:51:02,953 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:51:05,495 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 9 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:51:05,834 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 9 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:51:05,836 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.197.01/ctd2.nc WARNING 2025-06-26 05:51:05,837 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (1028) ctd2_salinity values found outside of range. This may indicate a problem with the ctd2 data. INFO 2025-06-26 05:51:05,837 calibrate.py _range_qc_combined_nc():898 [1] Setting 1028 ctd2_salinity values to NaN INFO 2025-06-26 05:51:05,837 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 05:51:05,838 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:51:05,858 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:51:06,528 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:51:06,533 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 05:51:06,533 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.197.01 ERROR 2025-06-26 05:51:06,534 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.197.01 INFO 2025-06-26 05:51:06,582 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_cal.nc INFO 2025-06-26 05:51:08,089 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, 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 05:51:08,093 process.py align():251 [1] Alignment steps for 2004.197.01 INFO 2025-06-26 05:51:08,117 align.py process_cal():139 [1] Processing dorado_2004.197.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.197.01 INFO 2025-06-26 05:51:08,136 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:51:08,139 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:51:08,186 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:51:08,189 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:51:08,234 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:51:08,237 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:51:08,264 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:51:08,264 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:51:08,282 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:51:08,285 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:51:08,329 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,332 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,371 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,374 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,413 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,416 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,455 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,458 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,497 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,500 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,540 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,543 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,582 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,585 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,625 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,628 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,667 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,671 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,710 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,712 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,753 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,756 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,796 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,799 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,840 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,843 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,882 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,886 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,926 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,929 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:08,968 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:08,972 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:09,011 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.197.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:51:09,014 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:51:09,058 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:51:09,088 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:51:09,117 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:51:09,149 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:51:09,182 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:51:09,214 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_align.nc INFO 2025-06-26 05:51:09,269 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, 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 05:51:09,272 process.py resample():273 [1] Resampling steps for 2004.197.01 INFO 2025-06-26 05:51:09,272 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:51:09,293 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_align.nc mission netCDF file INFO 2025-06-26 05:51:09,298 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_align.nc mission netCDF file INFO 2025-06-26 05:51:09,299 resample.py get_mission_start_end():1145 [1] navigation: 2004-07-15T15:49:59.208492544 to 2004-07-15T19:02:48.405948416 (0 days 00:00:00.079994368 before mission_end) INFO 2025-06-26 05:51:09,301 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-07-15T15:49:57.118635904 to 2004-07-15T19:02:48.355951744 (0 days 00:00:00.129991040 before mission_end) INFO 2025-06-26 05:51:09,302 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-07-15T15:49:47.519293312 to 2004-07-15T19:02:48.485942784 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:51:09,303 resample.py get_mission_start_end():1145 [1] isus : 2004-07-15T15:50:53.894746240 to 2004-07-15T19:02:47.616002304 (0 days 00:00:00.869940480 before mission_end) INFO 2025-06-26 05:51:09,305 resample.py get_mission_start_end():1145 [1] biolume : 2004-07-15T15:49:36.460016768 to 2004-07-15T19:02:47.465978368 (0 days 00:00:01.019964416 before mission_end) INFO 2025-06-26 05:51:09,306 resample.py get_mission_start_end():1145 [1] tailcone : 2004-07-15T15:49:38.529909120 to 2004-07-15T19:02:48.415947648 (0 days 00:00:00.069995136 before mission_end) INFO 2025-06-26 05:51:09,307 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_align.nc mission netCDF file INFO 2025-06-26 05:51:09,307 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,445 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,470 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,495 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,519 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,541 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,561 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,580 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,599 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,619 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,639 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,659 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,678 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,698 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,720 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,742 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,766 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,787 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,808 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,829 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,842 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,853 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,863 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,875 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:09,899 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 05:51:10,052 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_1S.nc INFO 2025-06-26 05:51:11,017 create_products.py gulper_odv():401 [1] No gulper times found for 2004.197.01 INFO 2025-06-26 05:51:11,017 process.py archive():337 [1] Archiving steps for 2004.197.01 INFO 2025-06-26 05:51:11,017 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01, BASE_PATH = /data/auv_data INFO 2025-06-26 05:51:11,017 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 05:51:11,018 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.197.01_1S.nc INFO 2025-06-26 05:51:11,031 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:51:11,032 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.197.01_cal.nc INFO 2025-06-26 05:51:11,078 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:51:11,079 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.197.01_align.nc INFO 2025-06-26 05:51:11,131 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:51:11,150 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,166 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,171 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,200 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,205 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,218 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,233 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,267 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004197/2004.197.01 done. INFO 2025-06-26 05:51:11,268 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:51:11,268 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.197.01/dorado_2004.197.01_processing.log /Volumes/AUVCTD/surveys/2004/netcdf