INFO 2025-06-26 11:28:16,552 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 11:28:16,552 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - as part of MB06 - John Ryan - ctdToUse = ctd1 INFO 2025-06-26 11:28:16,552 process.py process_mission():449 [1] Processing AUVCTD mission 2006.206.38 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:28:16,552 process.py download_process():165 [1] Download and processing steps for 2006.206.38 INFO 2025-06-26 11:28:16,552 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006206/2006.206.38 INFO 2025-06-26 11:28:16,552 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006206/2006.206.38 to /data/auv_data/dorado/missionlogs/2006.206.38 INFO 2025-06-26 11:28:23,277 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.206.38 INFO 2025-06-26 11:28:23,277 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/ctdDriver.log (22979219 bytes) INFO 2025-06-26 11:28:24,992 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.206.38/ctdDriver.log: [ 23345 37918 51516 164181 227234 258710] INFO 2025-06-26 11:28:25,065 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/ctdDriver2.log (22980797 bytes) INFO 2025-06-26 11:28:26,817 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.206.38/ctdDriver2.log: [ 48182 51516 91453 190088 205340 227823] INFO 2025-06-26 11:28:26,899 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/gps.log (121100 bytes) INFO 2025-06-26 11:28:26,925 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/hydroscatlog.log (15670634 bytes) INFO 2025-06-26 11:28:28,736 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.206.38/hydroscatlog.log: [ 97661 108996 111671 118170 212529] INFO 2025-06-26 11:28:28,784 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/navigation.log (77050114 bytes) INFO 2025-06-26 11:28:34,357 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/isuslog.log (1404021 bytes) INFO 2025-06-26 11:28:34,496 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/parosci.log (33581078 bytes) INFO 2025-06-26 11:28:37,249 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.206.38/parosci.log: [163045 164270 198128 206736 217521 239343 244325 261476 261477 309195 311120 311121 388259 389006 425189 445626 468880 483379 509291 512571 556261 569340 584460 598018 599952 605420 674153 685830] INFO 2025-06-26 11:28:37,344 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/tailCone.log (15670507 bytes) INFO 2025-06-26 11:28:39,293 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.206.38/biolume.log (17773164 bytes) INFO 2025-06-26 11:28:40,979 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:28:41,914 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.64 seconds WARNING 2025-06-26 11:28:41,915 process.py download_process():196 [1] No lopc.bin file for 2006.206.38 INFO 2025-06-26 11:28:41,915 process.py calibrate():227 [1] Calibration steps for 2006.206.38 INFO 2025-06-26 11:28:42,419 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 11:28:42,421 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:28:43,197 calibrate.py _nudge_pos():1806 [1] 92: 0.040 -0.0003714 0.0007972 1350 4.50 -12.262 32.849 2006-07-25T22:42:41.194958592 INFO 2025-06-26 11:28:43,228 calibrate.py _nudge_pos():1806 [1] 95: 0.050 0.0000152 0.0000229 65 0.21 10.580 19.927 2006-07-25T22:42:56.193931264 INFO 2025-06-26 11:28:43,943 calibrate.py _nudge_pos():1806 [1] 165: 0.040 -0.0014951 0.0036458 12660 42.20 -5.260 16.010 2006-07-25T23:26:17.195750400 INFO 2025-06-26 11:28:44,525 calibrate.py _nudge_pos():1806 [1] 222: 0.050 -0.0001553 0.0029297 8870 29.56 -0.780 18.363 2006-07-25T23:56:47.190387200 INFO 2025-06-26 11:28:45,193 calibrate.py _nudge_pos():1806 [1] 288: 0.050 -0.0001635 0.0022292 11435 38.11 -0.637 10.838 2006-07-26T00:35:59.189264384 INFO 2025-06-26 11:28:45,788 calibrate.py _nudge_pos():1806 [1] 347: 0.060 0.0028083 0.0002497 13120 43.73 9.537 1.058 2006-07-26T01:20:41.195534336 INFO 2025-06-26 11:28:46,407 calibrate.py _nudge_pos():1806 [1] 406: 0.060 -0.0011643 -0.0005190 10535 35.11 -4.924 -2.739 2006-07-26T01:56:47.197152768 INFO 2025-06-26 11:28:46,419 calibrate.py _nudge_pos():1806 [1] 407: 0.060 0.0001395 -0.0000257 40 0.13 159.398 -36.647 2006-07-26T01:56:55.196604928 INFO 2025-06-26 11:28:46,841 calibrate.py _nudge_pos():1806 [1] 448: 0.050 -0.0008943 0.0024293 10919 36.40 -3.649 12.368 2006-07-26T02:33:59.194250496 INFO 2025-06-26 11:28:47,511 calibrate.py _nudge_pos():1806 [1] 512: 0.070 -0.0000592 -0.0000044 15 0.05 -188.504 -17.446 2006-07-26T02:35:05.189729792 INFO 2025-06-26 11:28:47,552 calibrate.py _nudge_pos():1806 [1] 516: 0.070 0.0036859 0.0056473 15368 51.23 10.686 20.426 2006-07-26T03:26:22.188940800 INFO 2025-06-26 11:28:47,939 calibrate.py _nudge_pos():1806 [1] 553: 0.070 -0.0000181 0.0000445 45 0.15 -18.361 56.288 2006-07-26T03:27:08.195789056 INFO 2025-06-26 11:28:48,013 calibrate.py _nudge_pos():1806 [1] 560: 0.070 0.0000126 -0.0000409 15 0.05 40.210 -162.381 2006-07-26T03:27:17.195172608 INFO 2025-06-26 11:28:48,076 calibrate.py _nudge_pos():1806 [1] 566: 0.080 0.0009772 0.0067070 13355 44.51 3.261 27.920 2006-07-26T04:11:53.191854336 INFO 2025-06-26 11:28:48,629 calibrate.py _nudge_pos():1806 [1] 619: 0.080 0.0002315 0.0095138 13656 45.53 0.755 38.720 2006-07-26T04:58:17.191137280 INFO 2025-06-26 11:28:49,005 calibrate.py _nudge_pos():1806 [1] 655: 0.070 -0.0000426 -0.0000375 85 0.28 -22.610 -24.809 2006-07-26T04:59:09.197574656 INFO 2025-06-26 11:28:49,038 calibrate.py _nudge_pos():1806 [1] 658: 0.070 0.0015403 0.0160039 15297 51.00 4.486 58.151 2006-07-26T05:50:11.197813248 INFO 2025-06-26 11:28:49,598 calibrate.py _nudge_pos():1806 [1] 710: 0.080 -0.0000041 -0.0000182 35 0.11 -5.401 -29.760 2006-07-26T05:51:09.193840384 INFO 2025-06-26 11:28:49,610 calibrate.py _nudge_pos():1806 [1] 711: 0.080 -0.0073620 0.0067722 9279 30.93 -35.361 40.572 2006-07-26T06:22:05.196695296 INFO 2025-06-26 11:28:49,916 calibrate.py _nudge_pos():1806 [1] 740: 0.090 -0.0000292 0.0000033 65 0.21 -20.364 2.874 2006-07-26T06:22:46.193886720 INFO 2025-06-26 11:28:50,249 calibrate.py _nudge_pos():1806 [1] 771: 0.090 0.0021455 0.0146403 16500 55.01 5.792 49.313 2006-07-26T07:18:17.195697664 INFO 2025-06-26 11:28:50,857 calibrate.py _nudge_pos():1806 [1] 828: 0.090 0.0069093 0.0109960 16688 55.63 18.444 36.627 2006-07-26T08:14:52.193124352 INFO 2025-06-26 11:28:51,496 calibrate.py _nudge_pos():1806 [1] 887: 0.090 0.0105327 0.0037147 16483 54.95 28.466 12.527 2006-07-26T09:10:47.193291008 INFO 2025-06-26 11:28:52,071 calibrate.py _nudge_pos():1806 [1] 940: 0.100 0.0091376 -0.0031345 15009 50.03 27.128 -11.610 2006-07-26T10:01:41.194077696 INFO 2025-06-26 11:28:52,083 calibrate.py _nudge_pos():1806 [1] 941: 0.100 -0.0000181 0.0000024 15 0.05 -57.638 9.410 2006-07-26T10:01:44.193872128 INFO 2025-06-26 11:28:52,658 calibrate.py _nudge_pos():1806 [1] 994: 0.110 0.0021678 -0.0017512 7194 23.98 13.427 -13.532 2006-07-26T10:26:35.191731712 INFO 2025-06-26 11:28:53,206 calibrate.py _nudge_pos():1806 [1] 1043: 0.100 0.0048036 -0.0015145 10889 36.30 19.655 -7.732 2006-07-26T11:03:41.189240576 INFO 2025-06-26 11:28:53,806 calibrate.py _nudge_pos():1806 [1] 1097: 0.110 0.0048286 -0.0018581 10741 35.81 20.022 -9.614 2006-07-26T11:40:23.188393472 INFO 2025-06-26 11:28:54,408 calibrate.py _nudge_pos():1806 [1] 1152: 0.100 0.0037997 -0.0010583 10769 35.90 15.718 -5.463 2006-07-26T12:17:11.197134336 INFO 2025-06-26 11:28:54,976 calibrate.py _nudge_pos():1806 [1] 1204: 0.110 0.0022245 0.0007800 10844 36.15 9.137 3.998 2006-07-26T12:54:11.195054080 INFO 2025-06-26 11:28:55,590 calibrate.py _nudge_pos():1806 [1] 1258: 0.100 0.0008664 0.0025725 11314 37.71 3.410 12.640 2006-07-26T13:32:47.196397056 INFO 2025-06-26 11:28:56,109 calibrate.py _nudge_pos():1806 [1] 1304: 0.120 0.0001461 0.0034935 11628 38.76 0.560 16.700 2006-07-26T14:12:18.193972480 INFO 2025-06-26 11:28:56,686 calibrate.py _nudge_pos():1806 [1] 1356: 0.120 0.0001138 0.0034327 13449 44.83 0.377 14.189 2006-07-26T14:57:59.196200960 INFO 2025-06-26 11:28:57,328 calibrate.py _nudge_pos():1806 [1] 1412: 0.120 -0.0000401 0.0008219 4944 16.48 -0.361 9.242 2006-07-26T15:15:23.194682368 INFO 2025-06-26 11:28:57,968 calibrate.py _nudge_pos():1806 [1] 1468: 0.130 -0.0000605 0.0023266 9474 31.58 -0.285 13.652 2006-07-26T15:47:53.191098368 INFO 2025-06-26 11:28:58,688 calibrate.py _nudge_pos():1806 [1] 1531: 0.130 0.0001376 0.0015009 7760 25.86 0.789 10.754 2006-07-26T16:14:47.190532096 INFO 2025-06-26 11:28:59,355 calibrate.py _nudge_pos():1806 [1] 1589: 0.130 0.0001660 0.0018571 8504 28.35 0.869 12.140 2006-07-26T16:44:05.190100736 INFO 2025-06-26 11:29:00,265 calibrate.py _nudge_pos():1862 [1] 1647: - - - 2 0.00 - - INFO 2025-06-26 11:29:00,265 calibrate.py _nudge_pos():1868 [1] Points in final series = 326474 WARNING 2025-06-26 11:29:11,818 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:29:47,120 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:30:06,002 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:30:07,950 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:30:07,954 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.206.38/ctd1.nc INFO 2025-06-26 11:30:07,956 calibrate.py _range_qc_combined_nc():898 [1] Setting 5 ctd1_salinity values to NaN INFO 2025-06-26 11:30:07,956 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 11:30:07,956 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:30:22,381 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:30:24,416 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:30:24,420 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.206.38/ctd2.nc INFO 2025-06-26 11:30:24,422 calibrate.py _range_qc_combined_nc():898 [1] Setting 3 ctd2_salinity values to NaN INFO 2025-06-26 11:30:24,422 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 11:30:24,422 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:30:24,582 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:30:27,526 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 66000 200460 774840 774841 774842 774843 774844 774845 774846 774847 774848 774849 866640 893220 896220 896221 896222 896223 896224 896225 896226 896227 896228 1004100 1004101 1004102 1004103 1004104 1004105 1006080 1006920 1058940 1058941 1058942 1058943 1058944 1058945 1058946 1058947 1117560 1119240 1120980 1159080 1159081 1159082 1217400 1217401 1217402 1217403 1347180 1348200 1370040 1370041 1370042 1370043 1370044 1370045 1370046 1404240 1416960 1416961 1458480 1461960 1496280 1644060 1644061 1644062 1644063 1644064 1644065 1644066 1644067 1644068 1644069 1644070 1644071 1715580 1715581 1715582 1715583 1715584 1715585 1715586 1715587 1715588 1750740 1750741 1769880 1769881 1769882 1769883 1769884 1769885 1769886 1769887 1769888 1769889 1769890 1769891 1804380 1857420 1857421 1857422 1857423 1857424 1857425 1857426 1857427 1857428 1857429 1857430 1857431 1915800 1915801 1915802 1915803 1915804 1915805 1915806 1915807 1915808 1915809 1915810 1915811 1915812 1917060 2177400 2177401 2177402 2177403 2177404 2177405 2177406 2177407 2177408 2177409 2177410 2177411 2177412 2183280 2183281 2183282 2183283 2183284 2183285 2183286 2183287 2183288 2268900 2268901 2268902 2268903 2268904 2268905 2351160 2382900 2408160 2408161 2408162 2408163 2408164 2408165 2497380 2497381 2497382 2497383 2497384 2497385 2497386 2497387 2497388 2627640 2627641 2627642 2627643 2704920 2924040 2924041 3001140 3001141 3001142 3001143 3001144 3001145 3001146 3001147 3001148 3001149 3001150 3001151 3007140 3043200 3129480 3129481 3129482 3129483 3190080 3190081 3190082 3190083 3190084 3190085 3190086 3190087 3190088 3190089 3190090 3190091 3190092 3190093 3190094 3244020 3496800 3496801 3496802 3496803 3496804 3496805 3496806 3496807 3496808 3496809 3496810 3496811 3639960 3639961 3639962 3639963 3639964 3639965 3639966 3639967 3639968 3757380 3757381 3757382 3757383 3757384 3757385 3851160] INFO 2025-06-26 11:30:28,222 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:30:28,230 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 11:30:28,234 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.206.38 ERROR 2025-06-26 11:30:28,234 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.206.38 INFO 2025-06-26 11:30:28,579 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_cal.nc INFO 2025-06-26 11:30:49,156 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 11:30:49,161 process.py align():251 [1] Alignment steps for 2006.206.38 INFO 2025-06-26 11:30:49,206 align.py process_cal():139 [1] Processing dorado_2006.206.38_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.206.38 INFO 2025-06-26 11:30:49,288 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:30:49,297 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:30:49,499 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:30:49,510 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:30:49,712 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:30:49,723 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:30:49,846 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:30:49,847 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:30:49,926 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:30:49,937 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:30:50,134 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:30:50,144 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:50,314 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:30:50,324 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:50,494 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:30:50,504 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:50,678 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:50,688 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:50,898 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:50,908 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:51,081 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:51,091 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:51,275 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:51,285 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:51,461 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:51,474 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:51,646 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:51,656 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:51,830 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:51,841 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,013 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,024 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,200 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,210 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,383 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,391 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,564 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,573 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,745 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,755 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:52,927 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:52,938 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:53,110 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:53,120 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:53,292 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:53,302 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:53,475 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:53,485 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:53,660 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.206.38_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:30:53,669 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:30:53,889 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 11:30:54,031 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 11:30:54,175 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 11:30:54,323 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:30:54,480 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:30:54,611 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_align.nc INFO 2025-06-26 11:30:54,768 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 11:30:54,770 process.py resample():273 [1] Resampling steps for 2006.206.38 INFO 2025-06-26 11:30:54,770 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:30:54,806 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_align.nc mission netCDF file INFO 2025-06-26 11:30:54,816 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_align.nc mission netCDF file INFO 2025-06-26 11:30:54,818 resample.py get_mission_start_end():1145 [1] navigation: 2006-07-25T22:37:03.218111744 to 2006-07-26T16:45:25.594592512 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 11:30:54,820 resample.py get_mission_start_end():1145 [1] hs2 : 2006-07-25T22:36:45.229344256 to 2006-07-26T16:45:25.684586240 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 11:30:54,823 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-07-25T22:37:08.777730816 to 2006-07-26T16:45:25.774580224 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:30:54,826 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-07-25T22:37:08.967717888 to 2006-07-26T16:45:25.724583680 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 11:30:54,827 resample.py get_mission_start_end():1145 [1] isus : 2006-07-25T22:38:05.553841664 to 2006-07-26T16:45:25.594592512 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 11:30:54,829 resample.py get_mission_start_end():1145 [1] biolume : 2006-07-25T22:36:40.479635200 to 2006-07-26T16:45:24.484634368 (0 days 00:00:01.289945856 before mission_end) INFO 2025-06-26 11:30:54,832 resample.py get_mission_start_end():1145 [1] tailcone : 2006-07-25T22:36:41.639590144 to 2006-07-26T16:45:25.614591232 (0 days 00:00:00.159988992 before mission_end) INFO 2025-06-26 11:30:54,833 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_align.nc mission netCDF file INFO 2025-06-26 11:30:54,833 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,489 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,599 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,704 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,808 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,897 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:55,987 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,076 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,162 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,244 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,327 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,413 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,494 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,577 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,659 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,742 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,824 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,912 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:56,997 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,086 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,172 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,257 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,342 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,372 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,400 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,427 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,460 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:57,561 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:30:58,041 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_1S.nc INFO 2025-06-26 11:31:00,726 create_products.py gulper_odv():401 [1] No gulper times found for 2006.206.38 INFO 2025-06-26 11:31:00,726 process.py archive():337 [1] Archiving steps for 2006.206.38 INFO 2025-06-26 11:31:00,727 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38, BASE_PATH = /data/auv_data INFO 2025-06-26 11:31:00,728 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:31:00,729 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.206.38_1S.nc INFO 2025-06-26 11:31:00,775 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:31:00,776 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.206.38_cal.nc INFO 2025-06-26 11:31:01,249 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:31:01,250 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.206.38_align.nc INFO 2025-06-26 11:31:01,500 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:31:01,570 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:01,642 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:01,647 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:01,693 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:01,920 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:01,929 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:02,026 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:02,085 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:02,265 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006206/2006.206.38 done. INFO 2025-06-26 11:31:02,265 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:31:02,266 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.206.38/dorado_2006.206.38_processing.log /Volumes/AUVCTD/surveys/2006/netcdf