INFO 2025-06-26 11:23:17,207 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 11:23:17,207 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Davidson Seamount - John Ryan - ctdToUse = ctd1 INFO 2025-06-26 11:23:17,207 process.py process_mission():449 [1] Processing AUVCTD mission 2006.138.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:23:17,207 process.py download_process():165 [1] Download and processing steps for 2006.138.01 INFO 2025-06-26 11:23:17,207 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006138/2006.138.01 INFO 2025-06-26 11:23:17,207 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006138/2006.138.01 to /data/auv_data/dorado/missionlogs/2006.138.01 INFO 2025-06-26 11:23:23,649 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.138.01 INFO 2025-06-26 11:23:23,649 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/ctdDriver.log (21629475 bytes) INFO 2025-06-26 11:23:25,285 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/ctdDriver2.log (21628941 bytes) INFO 2025-06-26 11:23:26,863 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.138.01/ctdDriver2.log: [187135] INFO 2025-06-26 11:23:26,933 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/gps.log (134348 bytes) INFO 2025-06-26 11:23:26,956 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/hydroscatlog.log (14745074 bytes) INFO 2025-06-26 11:23:28,662 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.138.01/hydroscatlog.log: [ 4919 4920 4921 4923 93495 93496 128448 128450 128451 198352 198353 198354 198355] INFO 2025-06-26 11:23:28,707 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/navigation.log (72501450 bytes) INFO 2025-06-26 11:23:34,190 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/isuslog.log (1330901 bytes) INFO 2025-06-26 11:23:34,325 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.138.01/isuslog.log: [1 2 3 4 5 6 8] INFO 2025-06-26 11:23:34,329 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/parosci.log (31633430 bytes) INFO 2025-06-26 11:23:37,010 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.138.01/parosci.log: [ 15632 15633 15635 15636 110800 110801 591397 591398 591399] INFO 2025-06-26 11:23:37,095 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/tailCone.log (14751499 bytes) INFO 2025-06-26 11:23:39,044 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.138.01/biolume.log (16723788 bytes) INFO 2025-06-26 11:23:40,771 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:23:41,685 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.04 seconds WARNING 2025-06-26 11:23:41,686 process.py download_process():196 [1] No lopc.bin file for 2006.138.01 INFO 2025-06-26 11:23:41,686 process.py calibrate():227 [1] Calibration steps for 2006.138.01 INFO 2025-06-26 11:23:42,183 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 11:23:42,185 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:23:42,754 calibrate.py _nudge_pos():1806 [1] 74: 0.160 -0.0015961 0.0051654 6800 22.66 -10.615 42.233 2006-05-18T19:05:06.965352064 INFO 2025-06-26 11:23:43,160 calibrate.py _nudge_pos():1806 [1] 115: 0.180 -0.0024072 0.0093371 13320 44.40 -8.169 38.970 2006-05-18T19:50:11.970046464 INFO 2025-06-26 11:23:43,637 calibrate.py _nudge_pos():1806 [1] 163: 0.010 0.0003014 0.0043946 6601 22.00 2.064 37.014 2006-05-18T20:13:00.166318592 INFO 2025-06-26 11:23:44,306 calibrate.py _nudge_pos():1806 [1] 228: 0.010 -0.0031626 0.0089781 12791 42.63 -11.169 39.022 2006-05-18T20:56:42.166699136 INFO 2025-06-26 11:23:44,811 calibrate.py _nudge_pos():1806 [1] 278: 0.180 -0.0000283 0.0000093 20 0.06 -67.399 27.220 2006-05-18T20:57:34.963082496 INFO 2025-06-26 11:23:44,852 calibrate.py _nudge_pos():1806 [1] 282: 0.200 -0.0007185 0.0091815 13100 43.66 -2.477 38.965 2006-05-18T21:41:17.963394688 INFO 2025-06-26 11:23:45,449 calibrate.py _nudge_pos():1806 [1] 341: 0.200 -0.0000611 0.0040986 6339 21.13 -0.435 35.949 2006-05-18T22:03:23.962557568 INFO 2025-06-26 11:23:45,491 calibrate.py _nudge_pos():1806 [1] 345: 0.180 -0.0000018 -0.0000311 30 0.10 -2.814 -59.437 2006-05-18T22:03:32.971940224 INFO 2025-06-26 11:23:46,022 calibrate.py _nudge_pos():1806 [1] 396: 0.020 -0.0021200 0.0086976 12843 42.82 -7.448 37.641 2006-05-18T22:47:12.162513536 INFO 2025-06-26 11:23:46,676 calibrate.py _nudge_pos():1806 [1] 460: 0.200 0.0003717 0.0076221 11535 38.45 1.454 36.736 2006-05-18T23:26:41.970170496 INFO 2025-06-26 11:23:47,369 calibrate.py _nudge_pos():1806 [1] 528: 0.200 0.0005496 0.0042908 7314 24.38 3.389 32.617 2006-05-18T23:52:11.965358720 INFO 2025-06-26 11:23:48,022 calibrate.py _nudge_pos():1806 [1] 592: 0.010 -0.0025159 0.0048865 13006 43.35 -8.721 20.888 2006-05-19T00:36:36.162848768 INFO 2025-06-26 11:23:48,537 calibrate.py _nudge_pos():1806 [1] 642: 0.200 -0.0016026 0.0024353 9324 31.08 -7.747 14.521 2006-05-19T01:08:29.971743872 INFO 2025-06-26 11:23:49,231 calibrate.py _nudge_pos():1806 [1] 709: 0.010 -0.0058241 0.0022942 13199 44.00 -19.879 9.663 2006-05-19T01:53:36.166356864 INFO 2025-06-26 11:23:49,640 calibrate.py _nudge_pos():1806 [1] 749: 0.010 -0.0060912 0.0019755 11955 39.85 -22.948 9.186 2006-05-19T02:34:06.169890176 INFO 2025-06-26 11:23:50,244 calibrate.py _nudge_pos():1806 [1] 807: 0.030 -0.0076224 0.0027621 13245 44.15 -25.911 11.593 2006-05-19T03:19:12.164516736 INFO 2025-06-26 11:23:51,127 calibrate.py _nudge_pos():1806 [1] 889: 0.020 -0.0072362 0.0033225 13358 44.55 -24.369 13.821 2006-05-19T04:05:06.165854720 INFO 2025-06-26 11:23:51,776 calibrate.py _nudge_pos():1806 [1] 950: 0.030 -0.0067349 0.0031345 11938 39.80 -25.380 14.595 2006-05-19T04:45:54.168155008 INFO 2025-06-26 11:23:52,461 calibrate.py _nudge_pos():1806 [1] 1012: 0.030 -0.0075158 0.0045119 13491 44.98 -25.049 18.587 2006-05-19T05:31:54.169082112 INFO 2025-06-26 11:23:53,184 calibrate.py _nudge_pos():1806 [1] 1077: 0.040 -0.0038862 0.0048066 11020 36.73 -15.857 24.249 2006-05-19T06:09:42.163713664 INFO 2025-06-26 11:23:53,780 calibrate.py _nudge_pos():1806 [1] 1132: 0.040 -0.0046322 0.0053427 12295 40.98 -16.934 24.158 2006-05-19T06:51:36.171492352 INFO 2025-06-26 11:23:54,369 calibrate.py _nudge_pos():1806 [1] 1185: 0.050 0.0000113 0.0000081 15 0.05 36.204 31.969 2006-05-19T06:52:31.167724800 INFO 2025-06-26 11:23:54,465 calibrate.py _nudge_pos():1806 [1] 1194: 0.050 -0.0024449 0.0041423 10005 33.35 -10.981 23.018 2006-05-19T07:26:00.170098816 INFO 2025-06-26 11:23:55,160 calibrate.py _nudge_pos():1806 [1] 1257: 0.050 -0.0040248 0.0052883 12950 43.16 -13.960 22.703 2006-05-19T08:10:12.168424576 INFO 2025-06-26 11:23:55,850 calibrate.py _nudge_pos():1806 [1] 1319: 0.070 -0.0012741 0.0029079 8060 26.88 -7.095 20.046 2006-05-19T08:38:06.163747968 INFO 2025-06-26 11:23:56,464 calibrate.py _nudge_pos():1806 [1] 1375: 0.060 -0.0043070 0.0048105 13165 43.88 -14.685 20.314 2006-05-19T09:22:54.169606912 INFO 2025-06-26 11:23:57,103 calibrate.py _nudge_pos():1806 [1] 1434: 0.070 -0.0026841 0.0036795 11077 36.93 -10.870 18.462 2006-05-19T10:00:48.163827712 INFO 2025-06-26 11:23:57,773 calibrate.py _nudge_pos():1806 [1] 1492: 0.080 -0.0038469 0.0029234 10395 34.65 -16.601 15.635 2006-05-19T10:36:24.167501440 INFO 2025-06-26 11:23:58,362 calibrate.py _nudge_pos():1806 [1] 1545: 0.080 -0.0048483 0.0029106 12160 40.53 -17.879 13.307 2006-05-19T11:17:48.167335808 INFO 2025-06-26 11:23:58,930 calibrate.py _nudge_pos():1806 [1] 1596: 0.080 -0.0022330 0.0015448 6829 22.76 -14.659 12.575 2006-05-19T11:41:24.170332928 INFO 2025-06-26 11:24:01,773 calibrate.py _nudge_pos():1862 [1] 1832: - - - 1 0.00 - - INFO 2025-06-26 11:24:01,773 calibrate.py _nudge_pos():1868 [1] Points in final series = 306991 WARNING 2025-06-26 11:24:12,464 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:24:45,005 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:24:47,467 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:24:49,318 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:24:49,322 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.138.01/ctd1.nc INFO 2025-06-26 11:24:49,323 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 11:24:49,324 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 11:24:49,324 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:25:03,087 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:25:05,007 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:25:05,012 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.138.01/ctd2.nc INFO 2025-06-26 11:25:05,014 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 11:25:05,014 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 11:25:05,015 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:25:07,031 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:25:09,854 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 22260 22261 22262 22263 22264 22265 22266 22267 22268 22269 22270 22271 22272 22273 22274 22275 462480 463320 806220 1030020 1033980 1036380 1038180 1148820 1150020 1150140 1150500 1717500 1832640 1946040 2405820 2408700] INFO 2025-06-26 11:25:10,448 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:25:10,456 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 11:25:10,460 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.138.01 ERROR 2025-06-26 11:25:10,460 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.138.01 INFO 2025-06-26 11:25:10,693 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_cal.nc INFO 2025-06-26 11:25:18,559 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 11:25:18,566 process.py align():251 [1] Alignment steps for 2006.138.01 INFO 2025-06-26 11:25:18,607 align.py process_cal():139 [1] Processing dorado_2006.138.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.138.01 INFO 2025-06-26 11:25:18,698 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:25:18,707 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:25:18,936 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:25:18,949 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:25:19,168 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:25:19,179 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:25:19,314 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:25:19,314 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:25:19,400 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:25:19,412 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:25:19,628 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:25:19,638 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:19,823 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:25:19,833 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:20,021 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:25:20,031 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:20,230 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:20,240 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:20,456 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:20,465 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:20,653 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:20,662 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:20,849 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:20,859 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:21,074 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:21,084 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:21,293 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:21,306 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:21,514 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:21,524 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:21,720 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:21,730 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:21,922 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:21,932 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:22,122 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:22,133 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:22,328 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:22,338 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:22,529 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:22,539 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:22,731 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:22,742 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:22,933 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:22,943 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:23,133 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:23,142 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:23,331 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:23,341 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:23,542 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.138.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:25:23,551 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:25:23,789 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:25:23,944 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:25:24,102 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:25:24,267 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:25:24,442 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:25:24,587 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_align.nc INFO 2025-06-26 11:25:24,738 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 11:25:24,740 process.py resample():273 [1] Resampling steps for 2006.138.01 INFO 2025-06-26 11:25:24,741 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:25:24,776 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_align.nc mission netCDF file INFO 2025-06-26 11:25:24,785 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_align.nc mission netCDF file INFO 2025-06-26 11:25:24,787 resample.py get_mission_start_end():1145 [1] navigation: 2006-05-18T18:41:36.361985024 to 2006-05-19T11:45:41.362714112 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:25:24,790 resample.py get_mission_start_end():1145 [1] hs2 : 2006-05-18T18:41:18.283223424 to 2006-05-19T11:45:41.252721536 (0 days 00:00:00.109992576 before mission_end) INFO 2025-06-26 11:25:24,793 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-05-18T18:41:33.092208896 to 2006-05-19T11:45:41.242722304 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 11:25:24,795 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-05-18T18:41:33.322193152 to 2006-05-19T11:45:41.242722304 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 11:25:24,797 resample.py get_mission_start_end():1145 [1] isus : 2006-05-18T18:42:19.389037312 to 2006-05-19T11:45:41.012738048 (0 days 00:00:00.349976064 before mission_end) INFO 2025-06-26 11:25:24,798 resample.py get_mission_start_end():1145 [1] biolume : 2006-05-18T18:41:13.453520000 to 2006-05-19T11:45:39.992773504 (0 days 00:00:01.369940608 before mission_end) INFO 2025-06-26 11:25:24,801 resample.py get_mission_start_end():1145 [1] tailcone : 2006-05-18T18:41:14.273498112 to 2006-05-19T11:45:41.302718208 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 11:25:24,802 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_align.nc mission netCDF file INFO 2025-06-26 11:25:24,803 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,426 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,527 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,627 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,725 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,811 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,895 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:25,979 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,062 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,140 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,218 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,296 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,375 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,454 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,533 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,612 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,691 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,774 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,856 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:26,938 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,023 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,106 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,188 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,220 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,247 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,272 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,302 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,395 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:25:27,844 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_1S.nc INFO 2025-06-26 11:25:31,052 create_products.py gulper_odv():401 [1] No gulper times found for 2006.138.01 INFO 2025-06-26 11:25:31,053 process.py archive():337 [1] Archiving steps for 2006.138.01 INFO 2025-06-26 11:25:31,053 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01, BASE_PATH = /data/auv_data INFO 2025-06-26 11:25:31,054 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:25:31,055 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.138.01_1S.nc INFO 2025-06-26 11:25:31,099 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:25:31,100 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.138.01_cal.nc INFO 2025-06-26 11:25:31,361 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:25:31,361 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.138.01_align.nc INFO 2025-06-26 11:25:31,599 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:25:31,665 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:31,734 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:31,739 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:31,782 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:31,976 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:31,986 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:32,080 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:32,132 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:32,306 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006138/2006.138.01 done. INFO 2025-06-26 11:25:32,307 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:25:32,307 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.138.01/dorado_2006.138.01_processing.log /Volumes/AUVCTD/surveys/2006/netcdf