INFO 2025-06-26 11:19:52,668 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 11:19:52,669 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Davidson Seamount - John Ryan - ctdToUse = ctd1 INFO 2025-06-26 11:19:52,669 process.py process_mission():449 [1] Processing AUVCTD mission 2006.135.04 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:19:52,669 process.py download_process():165 [1] Download and processing steps for 2006.135.04 INFO 2025-06-26 11:19:52,669 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006135/2006.135.04 INFO 2025-06-26 11:19:52,669 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006135/2006.135.04 to /data/auv_data/dorado/missionlogs/2006.135.04 INFO 2025-06-26 11:19:59,274 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.135.04 INFO 2025-06-26 11:19:59,275 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/ctdDriver.log (21008899 bytes) INFO 2025-06-26 11:20:00,936 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.135.04/ctdDriver.log: [232135] INFO 2025-06-26 11:20:01,036 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/ctdDriver2.log (21007749 bytes) INFO 2025-06-26 11:20:02,653 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/gps.log (114116 bytes) INFO 2025-06-26 11:20:02,675 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/hydroscatlog.log (14323094 bytes) INFO 2025-06-26 11:20:04,398 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/navigation.log (70432202 bytes) INFO 2025-06-26 11:20:09,555 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/isuslog.log (1291861 bytes) INFO 2025-06-26 11:20:09,684 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/parosci.log (30724694 bytes) INFO 2025-06-26 11:20:12,215 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.135.04/parosci.log: [ 1382 1383 1384 67259 67260 67261 67262 67263 154640 285712 285713 373093 373095 460476 460477 460479 460480 523488] INFO 2025-06-26 11:20:12,294 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/tailCone.log (14330203 bytes) INFO 2025-06-26 11:20:14,045 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.135.04/biolume.log (16246156 bytes) INFO 2025-06-26 11:20:15,607 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:20:16,466 logs2netcdfs.py download_process_logs():807 [1] Time to process: 17.19 seconds WARNING 2025-06-26 11:20:16,467 process.py download_process():196 [1] No lopc.bin file for 2006.135.04 INFO 2025-06-26 11:20:16,467 process.py calibrate():227 [1] Calibration steps for 2006.135.04 INFO 2025-06-26 11:20:16,892 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 11:20:16,895 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:20:17,630 calibrate.py _nudge_pos():1806 [1] 85: 0.060 -0.0033999 -0.0033300 12519 41.73 -12.180 -14.787 2006-05-15T21:47:41.289523328 INFO 2025-06-26 11:20:18,216 calibrate.py _nudge_pos():1806 [1] 141: 0.070 -0.0015392 -0.0035824 13073 43.58 -5.282 -15.232 2006-05-15T22:32:11.286616064 INFO 2025-06-26 11:20:18,806 calibrate.py _nudge_pos():1806 [1] 198: 0.060 -0.0009878 -0.0030489 10070 33.56 -4.404 -16.832 2006-05-15T23:06:41.294810752 INFO 2025-06-26 11:20:19,520 calibrate.py _nudge_pos():1806 [1] 260: 0.080 -0.0027190 -0.0038175 11839 39.48 -10.309 -17.918 2006-05-15T23:47:11.288344832 INFO 2025-06-26 11:20:20,125 calibrate.py _nudge_pos():1806 [1] 317: 0.080 -0.0028199 -0.0027795 7939 26.46 -15.954 -19.463 2006-05-16T00:14:35.285723392 INFO 2025-06-26 11:20:20,846 calibrate.py _nudge_pos():1806 [1] 379: 0.080 -0.0062410 -0.0050540 13104 43.68 -21.403 -21.440 2006-05-16T00:59:17.291993344 INFO 2025-06-26 11:20:21,493 calibrate.py _nudge_pos():1806 [1] 438: 0.100 -0.0032957 -0.0026504 7210 24.03 -20.549 -20.438 2006-05-16T01:24:17.289236608 INFO 2025-06-26 11:20:22,129 calibrate.py _nudge_pos():1806 [1] 496: 0.100 -0.0071278 -0.0039914 13245 44.15 -24.203 -16.753 2006-05-16T02:09:23.293862528 INFO 2025-06-26 11:20:22,740 calibrate.py _nudge_pos():1806 [1] 554: 0.110 -0.0037573 -0.0020684 8595 28.65 -19.667 -13.379 2006-05-16T02:38:59.292198144 INFO 2025-06-26 11:20:23,363 calibrate.py _nudge_pos():1806 [1] 612: 0.120 -0.0058136 -0.0023178 13204 44.01 -19.815 -9.758 2006-05-16T03:23:57.287372800 INFO 2025-06-26 11:20:23,918 calibrate.py _nudge_pos():1806 [1] 662: 0.120 -0.0018999 -0.0006590 9035 30.11 -9.467 -4.055 2006-05-16T03:54:53.290228096 INFO 2025-06-26 11:20:24,530 calibrate.py _nudge_pos():1806 [1] 718: 0.130 -0.0042534 -0.0011264 13105 43.68 -14.618 -4.778 2006-05-16T04:39:29.286909568 INFO 2025-06-26 11:20:25,159 calibrate.py _nudge_pos():1806 [1] 775: 0.120 -0.0030276 -0.0028531 13429 44.76 -10.158 -11.811 2006-05-16T05:25:11.289069696 INFO 2025-06-26 11:20:25,810 calibrate.py _nudge_pos():1806 [1] 834: 0.140 -0.0009906 -0.0023068 9970 33.23 -4.478 -12.864 2006-05-16T05:59:23.288498176 INFO 2025-06-26 11:20:26,455 calibrate.py _nudge_pos():1806 [1] 892: 0.150 -0.0038664 -0.0042730 13032 43.45 -13.374 -18.225 2006-05-16T06:43:47.286001664 INFO 2025-06-26 11:20:27,116 calibrate.py _nudge_pos():1806 [1] 952: 0.160 -0.0025556 -0.0045709 12155 40.51 -9.484 -20.906 2006-05-16T07:25:17.285425152 INFO 2025-06-26 11:20:27,760 calibrate.py _nudge_pos():1806 [1] 1011: 0.150 -0.0014612 -0.0027843 10060 33.53 -6.554 -15.387 2006-05-16T07:59:47.293619840 INFO 2025-06-26 11:20:28,383 calibrate.py _nudge_pos():1806 [1] 1068: 0.160 -0.0027933 -0.0045074 13248 44.16 -9.516 -18.912 2006-05-16T08:44:53.288246400 INFO 2025-06-26 11:20:29,002 calibrate.py _nudge_pos():1806 [1] 1123: 0.170 -0.0014398 -0.0018537 8520 28.40 -7.631 -12.096 2006-05-16T09:14:11.287815296 INFO 2025-06-26 11:20:29,728 calibrate.py _nudge_pos():1806 [1] 1189: 0.160 -0.0033642 -0.0031815 13085 43.61 -11.614 -13.517 2006-05-16T09:58:53.294085248 INFO 2025-06-26 11:20:30,370 calibrate.py _nudge_pos():1806 [1] 1247: 0.170 -0.0016567 -0.0026891 11471 38.25 -6.524 -13.028 2006-05-16T10:38:05.292962304 INFO 2025-06-26 11:20:31,009 calibrate.py _nudge_pos():1806 [1] 1306: 0.180 -0.0018392 -0.0022484 10507 35.03 -7.911 -11.894 2006-05-16T11:14:05.294992000 INFO 2025-06-26 11:20:31,666 calibrate.py _nudge_pos():1806 [1] 1366: 0.190 -0.0035327 -0.0025299 11580 38.61 -13.790 -12.141 2006-05-16T11:53:41.292225152 INFO 2025-06-26 11:20:32,240 calibrate.py _nudge_pos():1806 [1] 1418: 0.190 -0.0029187 -0.0013673 9465 31.55 -13.950 -8.032 2006-05-16T12:26:05.289052288 INFO 2025-06-26 11:20:32,797 calibrate.py _nudge_pos():1806 [1] 1469: 0.200 -0.0051176 -0.0009530 13309 44.36 -17.402 -3.981 2006-05-16T13:11:17.293267200 INFO 2025-06-26 11:20:33,385 calibrate.py _nudge_pos():1806 [1] 1520: 0.020 -0.0021823 0.0005447 8030 26.76 -12.301 3.771 2006-05-16T13:38:53.489810048 INFO 2025-06-26 11:20:33,980 calibrate.py _nudge_pos():1862 [1] 1553: - - - 5 0.01 - - INFO 2025-06-26 11:20:33,980 calibrate.py _nudge_pos():1868 [1] Points in final series = 298357 WARNING 2025-06-26 11:20:44,409 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:20:46,628 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:21:03,637 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:21:05,461 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:21:05,465 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.135.04/ctd1.nc INFO 2025-06-26 11:21:05,467 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:21:05,467 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 11:21:05,467 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:21:07,600 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:21:09,390 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:21:09,394 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.135.04/ctd2.nc INFO 2025-06-26 11:21:09,396 calibrate.py _range_qc_combined_nc():898 [1] Setting 2 ctd2_salinity values to NaN INFO 2025-06-26 11:21:09,396 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 11:21:09,396 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:21:09,479 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:21:12,321 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 127020 130800 473820 587040 590460 820740 929940 987480 987481 987482 987483 987484 987485 987486 987487 987488 987489 987490 987491 987492 987493 987494 987495 987496 987497 987498 987499 987500 987501 987502 987503 987504 987505 987506 987507 987508 987509 987510 987511 987512 987513 987514 987515 987516 987517 987518 987519 987520 987521 987522 987523 987524 987525 987526 987527 987528 987529 987530 987531 987532 1507980 1509420 1628100 1740180 1740840 1928160 1928161 1928162 2629860 2630520 2630521 2630522 3022320 3582660] INFO 2025-06-26 11:21:12,887 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:21:12,894 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 11:21:12,894 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.135.04 ERROR 2025-06-26 11:21:12,894 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.135.04 INFO 2025-06-26 11:21:13,119 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_cal.nc INFO 2025-06-26 11:21:24,342 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 11:21:24,347 process.py align():251 [1] Alignment steps for 2006.135.04 INFO 2025-06-26 11:21:24,388 align.py process_cal():139 [1] Processing dorado_2006.135.04_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.135.04 INFO 2025-06-26 11:21:24,476 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:21:24,485 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:21:24,708 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:21:24,721 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:21:24,935 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:21:24,946 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:21:25,084 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:21:25,084 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:21:25,173 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:21:25,186 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:21:25,388 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:21:25,397 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:25,579 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:21:25,588 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:25,765 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:21:25,773 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:25,952 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:25,962 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:26,146 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:26,155 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:26,332 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:26,341 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:26,518 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:26,528 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:26,709 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:26,718 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:26,895 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:26,904 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:27,087 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:27,096 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:27,277 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:27,287 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:27,467 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:27,476 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:27,666 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:27,676 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:27,858 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:27,867 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:28,063 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:28,073 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:28,250 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:28,260 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:28,440 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:28,449 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:28,626 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:28,635 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:28,815 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:28,824 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:29,003 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.135.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:21:29,012 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:21:29,242 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:21:29,386 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:21:29,532 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:21:29,682 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:21:29,846 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:21:29,981 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_align.nc INFO 2025-06-26 11:21:30,129 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 11:21:30,132 process.py resample():273 [1] Resampling steps for 2006.135.04 INFO 2025-06-26 11:21:30,132 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:21:30,171 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_align.nc mission netCDF file INFO 2025-06-26 11:21:30,180 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_align.nc mission netCDF file INFO 2025-06-26 11:21:30,182 resample.py get_mission_start_end():1145 [1] navigation: 2006-05-15T21:04:54.105387648 to 2006-05-16T13:39:46.486179328 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:21:30,184 resample.py get_mission_start_end():1145 [1] hs2 : 2006-05-15T21:04:40.906291712 to 2006-05-16T13:39:46.396185600 (0 days 00:00:00.089993728 before mission_end) INFO 2025-06-26 11:21:30,187 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-05-15T21:05:03.374752512 to 2006-05-16T13:39:46.306191744 (0 days 00:00:00.179987584 before mission_end) INFO 2025-06-26 11:21:30,189 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-05-15T21:05:04.334686720 to 2006-05-16T13:39:46.286193152 (0 days 00:00:00.199986176 before mission_end) INFO 2025-06-26 11:21:30,191 resample.py get_mission_start_end():1145 [1] isus : 2006-05-15T21:06:01.730754816 to 2006-05-16T13:39:46.236196480 (0 days 00:00:00.249982848 before mission_end) INFO 2025-06-26 11:21:30,192 resample.py get_mission_start_end():1145 [1] biolume : 2006-05-15T21:04:34.576691200 to 2006-05-16T13:39:45.196233472 (0 days 00:00:01.289945856 before mission_end) INFO 2025-06-26 11:21:30,194 resample.py get_mission_start_end():1145 [1] tailcone : 2006-05-15T21:04:33.706785024 to 2006-05-16T13:39:46.466180864 (0 days 00:00:00.019998464 before mission_end) INFO 2025-06-26 11:21:30,195 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_align.nc mission netCDF file INFO 2025-06-26 11:21:30,196 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:30,787 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:30,889 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:30,984 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,079 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,160 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,244 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,326 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,406 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,482 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,557 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,632 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,708 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,783 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,858 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:31,933 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,009 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,089 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,171 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,250 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,329 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,409 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,488 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,519 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,543 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,566 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,594 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:32,682 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:21:33,119 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_1S.nc INFO 2025-06-26 11:21:35,746 create_products.py gulper_odv():401 [1] No gulper times found for 2006.135.04 INFO 2025-06-26 11:21:35,746 process.py archive():337 [1] Archiving steps for 2006.135.04 INFO 2025-06-26 11:21:35,746 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04, BASE_PATH = /data/auv_data INFO 2025-06-26 11:21:35,748 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:21:35,749 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.135.04_1S.nc INFO 2025-06-26 11:21:35,794 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:21:35,796 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.135.04_cal.nc INFO 2025-06-26 11:21:36,044 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:21:36,045 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.135.04_align.nc INFO 2025-06-26 11:21:36,278 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:21:36,345 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,411 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,416 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,458 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,649 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,657 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,753 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,805 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,971 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006135/2006.135.04 done. INFO 2025-06-26 11:21:36,972 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:21:36,972 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.135.04/dorado_2006.135.04_processing.log /Volumes/AUVCTD/surveys/2006/netcdf