INFO 2025-06-26 10:46:48,115 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 10:46:48,115 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Conducted from the Sproul on John Ryan's LOCO project - ctdToUse = ctd1 INFO 2025-06-26 10:46:48,115 process.py process_mission():449 [1] Processing LOCO mission 2005.237.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:46:48,115 process.py download_process():165 [1] Download and processing steps for 2005.237.00 INFO 2025-06-26 10:46:48,115 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005237/2005.237.00 INFO 2025-06-26 10:46:48,115 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005237/2005.237.00 to /data/auv_data/dorado/missionlogs/2005.237.00 INFO 2025-06-26 10:46:48,852 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.237.00 INFO 2025-06-26 10:46:48,852 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/ctdDriver.log (8385211 bytes) INFO 2025-06-26 10:46:49,486 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/ctdDriver2.log (8385117 bytes) INFO 2025-06-26 10:46:50,123 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/gps.log (109364 bytes) INFO 2025-06-26 10:46:50,143 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/hydroscatlog.log (5720174 bytes) INFO 2025-06-26 10:46:50,853 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/navigation.log (28114806 bytes) INFO 2025-06-26 10:46:52,827 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/isuslog.log (513205 bytes) INFO 2025-06-26 10:46:52,878 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.237.00/isuslog.log: [1 2 3 4 5 7] INFO 2025-06-26 10:46:52,880 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/parosci.log (12237494 bytes) INFO 2025-06-26 10:46:53,895 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/tailCone.log (5722987 bytes) INFO 2025-06-26 10:46:54,630 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.237.00/biolume.log (6489788 bytes) INFO 2025-06-26 10:46:55,255 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:46:55,590 logs2netcdfs.py download_process_logs():807 [1] Time to process: 6.74 seconds WARNING 2025-06-26 10:46:55,590 process.py download_process():196 [1] No lopc.bin file for 2005.237.00 INFO 2025-06-26 10:46:55,590 process.py calibrate():227 [1] Calibration steps for 2005.237.00 INFO 2025-06-26 10:46:55,788 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 10:46:55,789 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:46:56,813 calibrate.py _nudge_pos():1806 [1] 125: 0.150 -0.0018923 -0.0005317 5085 16.95 -16.538 -5.814 2005-08-25T03:18:03.122343808 INFO 2025-06-26 10:46:57,505 calibrate.py _nudge_pos():1806 [1] 197: 0.140 -0.0002182 -0.0000220 7625 25.41 -1.272 -0.160 2005-08-25T03:44:39.123010176 INFO 2025-06-26 10:46:58,597 calibrate.py _nudge_pos():1806 [1] 304: 0.140 -0.0003034 0.0000208 7810 26.03 -1.727 0.148 2005-08-25T04:12:27.128744064 INFO 2025-06-26 10:46:59,459 calibrate.py _nudge_pos():1806 [1] 392: 0.170 -0.0002592 0.0000189 8295 27.65 -1.390 0.127 2005-08-25T04:41:33.119135360 INFO 2025-06-26 10:47:00,411 calibrate.py _nudge_pos():1806 [1] 487: 0.140 -0.0003026 0.0000316 8320 27.73 -1.618 0.211 2005-08-25T05:10:51.128703616 INFO 2025-06-26 10:47:01,423 calibrate.py _nudge_pos():1806 [1] 588: 0.150 -0.0002165 -0.0000495 8020 26.73 -1.202 -0.343 2005-08-25T05:39:15.121972096 INFO 2025-06-26 10:47:02,473 calibrate.py _nudge_pos():1806 [1] 695: 0.160 0.0002460 -0.0003778 9130 30.43 1.200 -2.300 2005-08-25T06:11:27.119620992 INFO 2025-06-26 10:47:03,387 calibrate.py _nudge_pos():1806 [1] 787: 0.150 -0.0010884 0.0009722 8455 28.18 -5.729 6.393 2005-08-25T06:41:09.127545344 INFO 2025-06-26 10:47:04,288 calibrate.py _nudge_pos():1806 [1] 878: 0.170 -0.0014988 0.0003483 8100 27.00 -8.233 2.391 2005-08-25T07:09:39.120402816 INFO 2025-06-26 10:47:05,236 calibrate.py _nudge_pos():1806 [1] 973: 0.150 -0.0012289 0.0004565 7840 26.13 -6.972 3.237 2005-08-25T07:37:21.126547584 INFO 2025-06-26 10:47:06,086 calibrate.py _nudge_pos():1806 [1] 1058: 0.160 -0.0010453 0.0002432 5640 18.80 -8.242 2.397 2005-08-25T07:57:33.123519872 INFO 2025-06-26 10:47:06,097 calibrate.py _nudge_pos():1806 [1] 1059: 0.150 0.0000058 -0.0000425 25 0.08 10.747 -98.474 2005-08-25T07:57:38.123177472 INFO 2025-06-26 10:47:07,033 calibrate.py _nudge_pos():1806 [1] 1153: 0.160 -0.0017570 -0.0017849 6980 23.26 -11.193 -14.218 2005-08-25T08:22:27.121174144 INFO 2025-06-26 10:47:07,936 calibrate.py _nudge_pos():1806 [1] 1243: 0.160 -0.0022478 -0.0018899 7925 26.41 -12.609 -13.259 2005-08-25T08:50:21.126497024 INFO 2025-06-26 10:47:08,902 calibrate.py _nudge_pos():1806 [1] 1339: 0.160 -0.0023212 -0.0019720 7925 26.41 -13.017 -13.834 2005-08-25T09:18:21.121409408 INFO 2025-06-26 10:47:08,965 calibrate.py _nudge_pos():1806 [1] 1345: 0.170 0.0000370 0.0000378 25 0.08 68.540 87.641 2005-08-25T09:18:31.120724480 INFO 2025-06-26 10:47:09,788 calibrate.py _nudge_pos():1806 [1] 1423: 0.160 -0.0014781 -0.0009672 4575 15.25 -14.358 -11.755 2005-08-25T09:35:03.122767744 INFO 2025-06-26 10:47:09,808 calibrate.py _nudge_pos():1806 [1] 1425: 0.160 0.0000058 -0.0000366 15 0.05 18.292 -145.412 2005-08-25T09:35:07.122493568 INFO 2025-06-26 10:47:10,648 calibrate.py _nudge_pos():1862 [1] 1485: - - - 2 0.00 - - INFO 2025-06-26 10:47:10,648 calibrate.py _nudge_pos():1868 [1] Points in final series = 119122 WARNING 2025-06-26 10:47:10,844 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:47:11,760 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:47:12,700 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:47:13,423 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:47:13,425 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.237.00/ctd1.nc INFO 2025-06-26 10:47:13,426 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:47:13,427 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 10:47:13,427 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:47:14,373 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:47:15,097 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:47:15,099 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.237.00/ctd2.nc INFO 2025-06-26 10:47:15,100 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd2_salinity values to NaN INFO 2025-06-26 10:47:15,101 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 10:47:15,101 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:47:15,889 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:47:16,985 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 59580 285540] INFO 2025-06-26 10:47:17,205 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:47:17,210 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 10:47:17,211 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.237.00 ERROR 2025-06-26 10:47:17,211 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.237.00 INFO 2025-06-26 10:47:17,309 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_cal.nc INFO 2025-06-26 10:47:17,414 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 10:47:17,419 process.py align():251 [1] Alignment steps for 2005.237.00 INFO 2025-06-26 10:47:17,452 align.py process_cal():139 [1] Processing dorado_2005.237.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.237.00 INFO 2025-06-26 10:47:17,488 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:47:17,493 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:47:17,583 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:47:17,589 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:47:17,676 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:47:17,682 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:47:17,733 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:47:17,733 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:47:17,767 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:47:17,772 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:47:17,854 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:47:17,858 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:17,931 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:47:17,936 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,011 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:47:18,016 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,091 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,096 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,174 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,179 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,254 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,259 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,336 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,341 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,413 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,418 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,495 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,500 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,575 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,580 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,653 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,658 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,750 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,756 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,846 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,850 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:18,924 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:18,929 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,005 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,010 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,084 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,090 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,164 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,170 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,244 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,250 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,325 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,330 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,403 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.237.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:47:19,407 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:47:19,502 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:47:19,566 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:47:19,632 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:47:19,699 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:47:19,770 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:47:19,827 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_align.nc INFO 2025-06-26 10:47:19,915 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 10:47:19,918 process.py resample():273 [1] Resampling steps for 2005.237.00 INFO 2025-06-26 10:47:19,918 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:47:19,945 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_align.nc mission netCDF file INFO 2025-06-26 10:47:19,951 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_align.nc mission netCDF file INFO 2025-06-26 10:47:19,952 resample.py get_mission_start_end():1145 [1] navigation: 2005-08-25T02:59:24.338985728 to 2005-08-25T09:36:28.526916992 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:47:19,954 resample.py get_mission_start_end():1145 [1] hs2 : 2005-08-25T02:59:06.950176896 to 2005-08-25T09:36:28.536916224 (0 days 00:00:00.049996672 before mission_end) INFO 2025-06-26 10:47:19,956 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-08-25T02:59:29.578626816 to 2005-08-25T09:36:28.536916224 (0 days 00:00:00.049996672 before mission_end) INFO 2025-06-26 10:47:19,957 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-08-25T02:59:29.898604928 to 2005-08-25T09:36:28.576913536 (0 days 00:00:00.009999360 before mission_end) INFO 2025-06-26 10:47:19,959 resample.py get_mission_start_end():1145 [1] isus : 2005-08-25T03:00:05.306179328 to 2005-08-25T09:36:28.106945792 (0 days 00:00:00.479967104 before mission_end) INFO 2025-06-26 10:47:19,960 resample.py get_mission_start_end():1145 [1] biolume : 2005-08-25T02:59:02.360457216 to 2005-08-25T09:36:27.716938240 (0 days 00:00:00.869974656 before mission_end) INFO 2025-06-26 10:47:19,962 resample.py get_mission_start_end():1145 [1] tailcone : 2005-08-25T02:59:02.670470016 to 2005-08-25T09:36:28.586912896 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:47:19,963 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_align.nc mission netCDF file INFO 2025-06-26 10:47:19,963 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,231 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,278 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,323 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,369 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,407 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,446 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,487 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,524 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,560 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,595 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,631 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,666 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,701 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,735 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,770 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,805 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,843 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,880 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,916 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,952 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:20,988 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,026 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,044 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,059 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,074 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,090 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,133 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:47:21,375 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_1S.nc INFO 2025-06-26 10:47:22,472 create_products.py gulper_odv():401 [1] No gulper times found for 2005.237.00 INFO 2025-06-26 10:47:22,472 process.py archive():337 [1] Archiving steps for 2005.237.00 INFO 2025-06-26 10:47:22,472 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:47:22,473 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:47:22,475 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.00_1S.nc INFO 2025-06-26 10:47:22,497 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:47:22,498 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.00_cal.nc INFO 2025-06-26 10:47:22,600 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:47:22,602 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.237.00_align.nc INFO 2025-06-26 10:47:22,703 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:47:22,732 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,759 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,764 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,783 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,870 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,877 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,913 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:22,936 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:23,000 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005237/2005.237.00 done. INFO 2025-06-26 10:47:23,000 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:47:23,000 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.237.00/dorado_2005.237.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf