INFO 2025-06-26 11:17:19,242 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 11:17:19,242 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Unattended BIOLUME mission - Monterey to Soquel, then one sawtooth at canyon picked up early for next mission - ctdToUse = ctd1 INFO 2025-06-26 11:17:19,243 process.py process_mission():449 [1] Processing BIOLUME mission 2006.130.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:17:19,243 process.py download_process():165 [1] Download and processing steps for 2006.130.00 INFO 2025-06-26 11:17:19,243 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006130/2006.130.00 INFO 2025-06-26 11:17:19,243 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006130/2006.130.00 to /data/auv_data/dorado/missionlogs/2006.130.00 INFO 2025-06-26 11:17:24,962 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.130.00 INFO 2025-06-26 11:17:24,963 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/ctdDriver.log (15620307 bytes) INFO 2025-06-26 11:17:26,112 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/ctdDriver2.log (15619773 bytes) INFO 2025-06-26 11:17:27,277 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/gps.log (100148 bytes) INFO 2025-06-26 11:17:27,296 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/hydroscatlog.log (10650974 bytes) INFO 2025-06-26 11:17:28,564 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/navigation.log (52367110 bytes) INFO 2025-06-26 11:17:32,349 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/isuslog.log (957717 bytes) INFO 2025-06-26 11:17:32,443 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/parosci.log (22793270 bytes) INFO 2025-06-26 11:17:34,300 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.130.00/parosci.log: [ 36688 36689 82513 82514 82516 82518 257275 257277 344656 344657 344658] INFO 2025-06-26 11:17:34,357 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/tailCone.log (10656043 bytes) INFO 2025-06-26 11:17:35,658 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.130.00/biolume.log (12081564 bytes) INFO 2025-06-26 11:17:36,817 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:17:37,415 logs2netcdfs.py download_process_logs():807 [1] Time to process: 12.45 seconds WARNING 2025-06-26 11:17:37,416 process.py download_process():196 [1] No lopc.bin file for 2006.130.00 INFO 2025-06-26 11:17:37,416 process.py calibrate():227 [1] Calibration steps for 2006.130.00 INFO 2025-06-26 11:17:37,715 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 11:17:37,717 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:17:38,472 calibrate.py _nudge_pos():1806 [1] 93: 0.160 -0.0008174 -0.0002313 2740 9.13 -13.315 -4.695 2006-05-10T03:17:11.926277376 INFO 2025-06-26 11:17:39,013 calibrate.py _nudge_pos():1806 [1] 147: 0.160 -0.0017263 -0.0012080 6155 20.51 -12.513 -10.912 2006-05-10T03:38:35.928317312 INFO 2025-06-26 11:17:39,691 calibrate.py _nudge_pos():1806 [1] 215: 0.160 -0.0031402 -0.0021360 9860 32.86 -14.204 -12.044 2006-05-10T04:12:35.928567680 INFO 2025-06-26 11:17:40,164 calibrate.py _nudge_pos():1806 [1] 262: 0.180 -0.0039220 -0.0025310 10540 35.13 -16.590 -13.350 2006-05-10T04:48:29.921009024 INFO 2025-06-26 11:17:40,577 calibrate.py _nudge_pos():1806 [1] 303: 0.180 -0.0039043 -0.0021107 10090 33.63 -17.247 -11.630 2006-05-10T05:22:47.920026496 INFO 2025-06-26 11:17:41,164 calibrate.py _nudge_pos():1806 [1] 361: 0.170 -0.0039600 -0.0015406 10875 36.25 -16.225 -7.876 2006-05-10T05:59:59.927123584 INFO 2025-06-26 11:17:41,745 calibrate.py _nudge_pos():1806 [1] 419: 0.180 -0.0017763 -0.0007224 6435 21.45 -12.297 -6.241 2006-05-10T06:22:23.925053312 INFO 2025-06-26 11:17:42,228 calibrate.py _nudge_pos():1806 [1] 468: 0.180 -0.0007154 -0.0002660 2850 9.50 -11.185 -5.190 2006-05-10T06:32:41.922717568 INFO 2025-06-26 11:17:42,380 calibrate.py _nudge_pos():1806 [1] 483: 0.190 -0.0000090 0.0000294 30 0.10 -13.892 56.395 2006-05-10T06:33:01.921347584 INFO 2025-06-26 11:17:42,801 calibrate.py _nudge_pos():1806 [1] 525: 0.190 -0.0020392 0.0022971 8605 28.68 -10.553 14.842 2006-05-10T07:02:23.920642432 INFO 2025-06-26 11:17:42,841 calibrate.py _nudge_pos():1806 [1] 529: 0.190 -0.0001247 -0.0001971 15 0.05 -396.602 -782.806 2006-05-10T07:02:29.920231296 INFO 2025-06-26 11:17:43,335 calibrate.py _nudge_pos():1806 [1] 578: 0.010 -0.0019671 0.0015675 6419 21.40 -13.640 13.573 2006-05-10T07:24:42.118969728 INFO 2025-06-26 11:17:44,013 calibrate.py _nudge_pos():1806 [1] 645: 0.180 -0.0045154 0.0025925 10645 35.50 -18.868 13.534 2006-05-10T08:01:17.928546432 INFO 2025-06-26 11:17:44,467 calibrate.py _nudge_pos():1806 [1] 690: 0.190 -0.0043929 0.0026427 10640 35.46 -18.367 13.809 2006-05-10T08:37:29.919754752 INFO 2025-06-26 11:17:44,974 calibrate.py _nudge_pos():1806 [1] 740: 0.020 -0.0048215 0.0024339 9926 33.08 -21.602 13.632 2006-05-10T09:11:24.120402304 INFO 2025-06-26 11:17:45,539 calibrate.py _nudge_pos():1806 [1] 796: 0.200 -0.0000208 0.0000079 20 0.06 -48.767 22.999 2006-05-10T09:12:22.926374016 INFO 2025-06-26 11:17:45,581 calibrate.py _nudge_pos():1806 [1] 800: 0.200 -0.0048879 0.0024428 10037 33.46 -21.645 13.528 2006-05-10T09:45:53.918611584 INFO 2025-06-26 11:17:46,144 calibrate.py _nudge_pos():1806 [1] 855: 0.010 -0.0035422 0.0019370 7561 25.20 -20.822 14.243 2006-05-10T10:12:00.121319296 INFO 2025-06-26 11:17:46,734 calibrate.py _nudge_pos():1806 [1] 913: 0.200 -0.0007364 0.0007745 2829 9.43 -11.572 15.225 2006-05-10T10:22:22.918654720 INFO 2025-06-26 11:17:47,358 calibrate.py _nudge_pos():1806 [1] 973: 0.200 -0.0041950 0.0022483 12309 41.03 -15.151 10.155 2006-05-10T11:04:23.925953920 INFO 2025-06-26 11:17:47,960 calibrate.py _nudge_pos():1806 [1] 1031: 0.010 -0.0042232 0.0016747 12765 42.55 -14.713 7.294 2006-05-10T11:47:54.127142912 INFO 2025-06-26 11:17:48,416 calibrate.py _nudge_pos():1806 [1] 1075: 0.010 -0.0044759 0.0018808 13133 43.78 -15.160 7.961 2006-05-10T12:32:24.124235648 INFO 2025-06-26 11:17:49,008 calibrate.py _nudge_pos():1806 [1] 1132: 0.020 -0.0044847 0.0013681 13220 44.06 -15.098 5.753 2006-05-10T13:17:24.119273216 INFO 2025-06-26 11:17:49,603 calibrate.py _nudge_pos():1806 [1] 1189: 0.020 -0.0007354 -0.0007490 9380 31.26 -3.491 -4.440 2006-05-10T13:49:36.126921600 INFO 2025-06-26 11:17:50,102 calibrate.py _nudge_pos():1806 [1] 1236: 0.020 -0.0004405 -0.0020367 8470 28.23 -2.316 -13.369 2006-05-10T14:18:36.127723392 INFO 2025-06-26 11:17:50,705 calibrate.py _nudge_pos():1806 [1] 1293: 0.030 -0.0031254 0.0019356 11840 39.46 -11.751 9.089 2006-05-10T14:59:00.121668608 INFO 2025-06-26 11:17:51,381 calibrate.py _nudge_pos():1806 [1] 1357: 0.040 -0.0032256 0.0013812 7845 26.15 -18.300 9.789 2006-05-10T15:26:12.119869056 INFO 2025-06-26 11:17:51,610 calibrate.py _nudge_pos():1862 [1] 1357: - - - 2 0.00 - - INFO 2025-06-26 11:17:51,611 calibrate.py _nudge_pos():1868 [1] Points in final series = 221743 WARNING 2025-06-26 11:17:59,237 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:18:00,892 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:18:02,607 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:18:03,944 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:18:03,948 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.130.00/ctd1.nc INFO 2025-06-26 11:18:03,949 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:18:03,950 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 11:18:03,950 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:18:05,649 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:18:06,979 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:18:06,983 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.130.00/ctd2.nc INFO 2025-06-26 11:18:06,984 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd2_salinity values to NaN INFO 2025-06-26 11:18:06,985 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 11:18:06,985 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:18:07,047 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:18:09,068 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 797640 1131540 1136880 1245480 1247460 1249620 1363680 1512540 1700460 1974600 1974601 1974602 1974603 1974604 1974605 1974606 1974607 1974608 1974609 1974610 1974611 1974612 1974613 1974614 1974615 1974616 1974617 1974618 1974619 1974620 1974621 1974622 1974623 1974624 2158620] INFO 2025-06-26 11:18:09,472 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:18:09,479 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 11:18:09,479 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.130.00 ERROR 2025-06-26 11:18:09,479 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.130.00 INFO 2025-06-26 11:18:09,648 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_cal.nc INFO 2025-06-26 11:18:09,806 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 11:18:09,811 process.py align():251 [1] Alignment steps for 2006.130.00 INFO 2025-06-26 11:18:09,847 align.py process_cal():139 [1] Processing dorado_2006.130.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.130.00 INFO 2025-06-26 11:18:09,910 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:18:09,917 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:18:10,093 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:18:10,102 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:18:10,255 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:18:10,264 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:18:10,362 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:18:10,363 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:18:10,423 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:18:10,431 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:18:10,582 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:18:10,589 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:10,719 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:18:10,727 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:10,862 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:18:10,869 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:10,999 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,006 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,143 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,150 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,282 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,289 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,424 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,431 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,569 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,577 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,709 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,716 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,848 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,855 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:11,989 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:11,996 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,130 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,137 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,269 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,276 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,410 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,418 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,548 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,556 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,687 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,695 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,828 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,836 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:12,974 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:12,982 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:13,119 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:13,127 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:13,261 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.130.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:18:13,268 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:18:13,437 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:18:13,549 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:18:13,660 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:18:13,775 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:18:13,899 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:18:14,005 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_align.nc INFO 2025-06-26 11:18:14,134 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 11:18:14,137 process.py resample():273 [1] Resampling steps for 2006.130.00 INFO 2025-06-26 11:18:14,138 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:18:14,172 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_align.nc mission netCDF file INFO 2025-06-26 11:18:14,184 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_align.nc mission netCDF file INFO 2025-06-26 11:18:14,186 resample.py get_mission_start_end():1145 [1] navigation: 2006-05-10T03:06:54.328585856 to 2006-05-10T15:26:33.528402304 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:18:14,190 resample.py get_mission_start_end():1145 [1] hs2 : 2006-05-10T03:06:36.239825024 to 2006-05-10T15:26:33.408410496 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 11:18:14,193 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-05-10T03:06:59.108258432 to 2006-05-10T15:26:33.358413952 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 11:18:14,196 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-05-10T03:06:59.118257792 to 2006-05-10T15:26:33.358413952 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 11:18:14,199 resample.py get_mission_start_end():1145 [1] isus : 2006-05-10T03:07:57.844234752 to 2006-05-10T15:26:32.468474880 (0 days 00:00:01.059927424 before mission_end) INFO 2025-06-26 11:18:14,201 resample.py get_mission_start_end():1145 [1] biolume : 2006-05-10T03:06:31.390122880 to 2006-05-10T15:26:32.698425088 (0 days 00:00:00.829977216 before mission_end) INFO 2025-06-26 11:18:14,204 resample.py get_mission_start_end():1145 [1] tailcone : 2006-05-10T03:06:31.880123648 to 2006-05-10T15:26:33.378412672 (0 days 00:00:00.149989632 before mission_end) INFO 2025-06-26 11:18:14,205 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_align.nc mission netCDF file INFO 2025-06-26 11:18:14,206 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:14,668 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:14,742 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:14,814 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:14,885 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:14,948 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,011 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,072 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,134 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,192 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,251 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,309 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,370 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,429 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,486 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,544 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,602 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,663 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,723 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,784 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,844 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,904 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,963 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:15,988 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:16,010 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:16,031 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:16,054 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:16,123 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:18:16,472 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_1S.nc INFO 2025-06-26 11:18:18,203 create_products.py gulper_odv():401 [1] No gulper times found for 2006.130.00 INFO 2025-06-26 11:18:18,203 process.py archive():337 [1] Archiving steps for 2006.130.00 INFO 2025-06-26 11:18:18,203 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00, BASE_PATH = /data/auv_data INFO 2025-06-26 11:18:18,205 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:18:18,206 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.130.00_1S.nc INFO 2025-06-26 11:18:18,288 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:18:18,289 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.130.00_cal.nc INFO 2025-06-26 11:18:18,464 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:18:18,466 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.130.00_align.nc INFO 2025-06-26 11:18:18,643 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:18:18,689 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:18,738 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:18,745 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:18,778 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:18,933 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:18,942 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:19,010 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:19,051 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:19,182 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006130/2006.130.00 done. INFO 2025-06-26 11:18:19,183 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:18:19,183 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.130.00/dorado_2006.130.00_processing.log /Volumes/AUVCTD/surveys/2006/netcdf