INFO 2025-06-26 10:42:22,301 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 10:42:22,301 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/8/05: 4 missions after this aborted then had bad GPS, on;y this one portaled over. - ctdToUse = ctd1 INFO 2025-06-26 10:42:22,301 process.py process_mission():449 [1] Processing LOCO mission 2005.180.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:42:22,301 process.py download_process():165 [1] Download and processing steps for 2005.180.00 INFO 2025-06-26 10:42:22,301 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005180/2005.180.00 INFO 2025-06-26 10:42:22,301 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005180/2005.180.00 to /data/auv_data/dorado/missionlogs/2005.180.00 INFO 2025-06-26 10:42:22,548 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.180.00 INFO 2025-06-26 10:42:22,548 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/ctdDriver.log (2359371 bytes) WARNING 2025-06-26 10:42:22,674 logs2netcdfs.py _create_variable():536 [1] spare2: shape mismatch: objects cannot be broadcast to a single shape. Mismatch is between arg 0 with shape (26804,) and arg 1 with shape (26803,). INFO 2025-06-26 10:42:22,674 logs2netcdfs.py _create_variable():537 [1] len(data) (26803) does not match shape of spare2.shape[0] (26804) WARNING 2025-06-26 10:42:22,674 logs2netcdfs.py _create_variable():544 [1] spare2 data is short by one, appending the last value: 0.0 WARNING 2025-06-26 10:42:22,676 logs2netcdfs.py _create_variable():536 [1] humidity: shape mismatch: objects cannot be broadcast to a single shape. Mismatch is between arg 0 with shape (26804,) and arg 1 with shape (26803,). INFO 2025-06-26 10:42:22,676 logs2netcdfs.py _create_variable():537 [1] len(data) (26803) does not match shape of humidity.shape[0] (26804) WARNING 2025-06-26 10:42:22,676 logs2netcdfs.py _create_variable():544 [1] humidity data is short by one, appending the last value: 1.0402930402930404 WARNING 2025-06-26 10:42:22,679 logs2netcdfs.py _create_variable():536 [1] flow1: shape mismatch: objects cannot be broadcast to a single shape. Mismatch is between arg 0 with shape (26804,) and arg 1 with shape (26803,). INFO 2025-06-26 10:42:22,679 logs2netcdfs.py _create_variable():537 [1] len(data) (26803) does not match shape of flow1.shape[0] (26804) WARNING 2025-06-26 10:42:22,679 logs2netcdfs.py _create_variable():544 [1] flow1 data is short by one, appending the last value: 2.1648351648351647 WARNING 2025-06-26 10:42:22,682 logs2netcdfs.py _create_variable():536 [1] OBS: shape mismatch: objects cannot be broadcast to a single shape. Mismatch is between arg 0 with shape (26804,) and arg 1 with shape (26803,). INFO 2025-06-26 10:42:22,682 logs2netcdfs.py _create_variable():537 [1] len(data) (26803) does not match shape of OBS.shape[0] (26804) WARNING 2025-06-26 10:42:22,682 logs2netcdfs.py _create_variable():544 [1] OBS data is short by one, appending the last value: 0.0 WARNING 2025-06-26 10:42:22,684 logs2netcdfs.py _create_variable():536 [1] dissolvedO2: shape mismatch: objects cannot be broadcast to a single shape. Mismatch is between arg 0 with shape (26804,) and arg 1 with shape (26803,). INFO 2025-06-26 10:42:22,684 logs2netcdfs.py _create_variable():537 [1] len(data) (26803) does not match shape of dissolvedO2.shape[0] (26804) WARNING 2025-06-26 10:42:22,684 logs2netcdfs.py _create_variable():544 [1] dissolvedO2 data is short by one, appending the last value: 3.0732600732600734 INFO 2025-06-26 10:42:22,723 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/ctdDriver2.log (1916325 bytes) INFO 2025-06-26 10:42:22,868 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/gps.log (36140 bytes) INFO 2025-06-26 10:42:22,879 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/hydroscatlog.log (1311854 bytes) INFO 2025-06-26 10:42:23,036 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.180.00/hydroscatlog.log: [8980] INFO 2025-06-26 10:42:23,040 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/navigation.log (6429238 bytes) INFO 2025-06-26 10:42:23,512 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/isuslog.log (116405 bytes) INFO 2025-06-26 10:42:23,528 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/parosci.log (2806022 bytes) INFO 2025-06-26 10:42:23,765 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/tailCone.log (1312843 bytes) INFO 2025-06-26 10:42:23,931 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.180.00/biolume.log (1490972 bytes) INFO 2025-06-26 10:42:24,073 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:42:24,154 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.61 seconds WARNING 2025-06-26 10:42:24,154 process.py download_process():196 [1] No lopc.bin file for 2005.180.00 INFO 2025-06-26 10:42:24,154 process.py calibrate():227 [1] Calibration steps for 2005.180.00 INFO 2025-06-26 10:42:24,244 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 10:42:24,246 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:42:25,332 calibrate.py _nudge_pos():1806 [1] 134: 0.030 -0.0014584 -0.0012581 6215 20.71 -10.434 -11.255 2005-06-29T14:51:37.033936000 INFO 2025-06-26 10:42:26,237 calibrate.py _nudge_pos():1806 [1] 231: 0.040 -0.0019589 -0.0014755 7140 23.80 -12.196 -11.490 2005-06-29T15:17:01.029535104 INFO 2025-06-26 10:42:27,244 calibrate.py _nudge_pos():1806 [1] 339: 0.060 -0.0021019 -0.0016204 7384 24.61 -12.649 -12.199 2005-06-29T15:43:25.031023488 INFO 2025-06-26 10:42:28,190 calibrate.py _nudge_pos():1806 [1] 440: 0.040 -0.0012380 -0.0008675 4180 13.93 -13.163 -11.540 2005-06-29T15:59:01.026903424 INFO 2025-06-26 10:42:28,655 calibrate.py _nudge_pos():1862 [1] 468: - - - 3 0.01 - - INFO 2025-06-26 10:42:28,655 calibrate.py _nudge_pos():1868 [1] Points in final series = 27234 WARNING 2025-06-26 10:42:28,703 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:42:31,638 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:42:31,902 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: -1103 seconds, d_end_time_diff: 129 seconds INFO 2025-06-26 10:42:32,102 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: -1103 seconds, d_end_time_diff: 129 seconds INFO 2025-06-26 10:42:32,103 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.180.00/ctd1.nc WARNING 2025-06-26 10:42:32,105 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (2195) ctd1_salinity values found outside of range. This may indicate a problem with the ctd1 data. INFO 2025-06-26 10:42:32,105 calibrate.py _range_qc_combined_nc():898 [1] Setting 2195 ctd1_salinity values to NaN INFO 2025-06-26 10:42:32,105 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 10:42:32,105 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:42:32,310 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:42:32,475 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:42:32,477 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.180.00/ctd2.nc INFO 2025-06-26 10:42:32,478 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:42:32,479 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 10:42:32,479 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:42:32,494 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:42:32,725 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [87960] INFO 2025-06-26 10:42:32,776 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: 0 seconds ERROR 2025-06-26 10:42:32,781 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 10:42:32,782 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.180.00 ERROR 2025-06-26 10:42:32,782 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.180.00 INFO 2025-06-26 10:42:32,806 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_cal.nc INFO 2025-06-26 10:42:32,864 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 10:42:32,868 process.py align():251 [1] Alignment steps for 2005.180.00 INFO 2025-06-26 10:42:32,893 align.py process_cal():139 [1] Processing dorado_2005.180.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.180.00 INFO 2025-06-26 10:42:32,904 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:42:32,906 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:42:32,932 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:42:32,934 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:42:32,959 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:42:32,962 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:42:32,976 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:42:32,976 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:42:32,986 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:42:32,988 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:42:33,013 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:42:33,016 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,039 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:42:33,041 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,064 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:42:33,066 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,089 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,091 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,118 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,121 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,146 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,148 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,174 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,176 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,201 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,204 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,230 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,233 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,258 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,260 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,287 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,290 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,315 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,318 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,343 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,346 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,372 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,375 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,399 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,401 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,424 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,427 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,450 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,453 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,477 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,479 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,503 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,506 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,530 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.180.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:42:33,532 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:42:33,563 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:42:33,585 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:42:33,610 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:42:33,635 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:42:33,660 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:42:33,681 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_align.nc INFO 2025-06-26 10:42:33,732 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 10:42:33,735 process.py resample():273 [1] Resampling steps for 2005.180.00 INFO 2025-06-26 10:42:33,735 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:42:33,759 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_align.nc mission netCDF file INFO 2025-06-26 10:42:33,763 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_align.nc mission netCDF file INFO 2025-06-26 10:42:33,764 resample.py get_mission_start_end():1145 [1] navigation: 2005-06-29T14:29:03.866634368 to 2005-06-29T15:59:50.643504640 (0 days 00:02:09.321140736 before mission_end) INFO 2025-06-26 10:42:33,766 resample.py get_mission_start_end():1145 [1] hs2 : 2005-06-29T14:28:45.587886592 to 2005-06-29T15:59:50.663503232 (0 days 00:02:09.301142144 before mission_end) INFO 2025-06-26 10:42:33,767 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-06-29T14:10:19.373667200 to 2005-06-29T16:01:59.964645376 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:42:33,768 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-06-29T14:29:08.416322688 to 2005-06-29T15:59:50.523512832 (0 days 00:02:09.441132544 before mission_end) INFO 2025-06-26 10:42:33,770 resample.py get_mission_start_end():1145 [1] isus : 2005-06-29T14:30:09.962106496 to 2005-06-29T15:59:50.503514112 (0 days 00:02:09.461131264 before mission_end) INFO 2025-06-26 10:42:33,771 resample.py get_mission_start_end():1145 [1] biolume : 2005-06-29T14:28:40.818178944 to 2005-06-29T15:59:50.233498368 (0 days 00:02:09.731147008 before mission_end) INFO 2025-06-26 10:42:33,772 resample.py get_mission_start_end():1145 [1] tailcone : 2005-06-29T14:28:41.358176256 to 2005-06-29T15:59:50.743497600 (0 days 00:02:09.221147776 before mission_end) INFO 2025-06-26 10:42:33,773 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_align.nc mission netCDF file INFO 2025-06-26 10:42:33,773 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,867 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,883 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,899 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,915 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,930 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,945 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,959 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,974 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:33,988 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,009 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,024 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,039 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,053 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,067 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,082 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,096 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,111 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,126 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,141 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,156 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,170 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,185 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,195 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,205 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,214 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,225 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,241 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:42:34,370 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_1S.nc INFO 2025-06-26 10:42:35,086 create_products.py gulper_odv():401 [1] No gulper times found for 2005.180.00 INFO 2025-06-26 10:42:35,086 process.py archive():337 [1] Archiving steps for 2005.180.00 INFO 2025-06-26 10:42:35,086 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:42:35,086 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:42:35,087 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.180.00_1S.nc INFO 2025-06-26 10:42:35,098 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:42:35,099 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.180.00_cal.nc INFO 2025-06-26 10:42:35,127 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:42:35,128 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.180.00_align.nc INFO 2025-06-26 10:42:35,155 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:42:35,168 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,179 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,184 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,192 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,214 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,219 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,231 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,242 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,260 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005180/2005.180.00 done. INFO 2025-06-26 10:42:35,260 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:42:35,260 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.180.00/dorado_2005.180.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf