INFO 2025-06-26 05:42:55,635 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 05:42:55,635 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/12/05 - ctdToUse = ctd1 INFO 2025-06-26 05:42:55,635 process.py process_mission():449 [1] Processing AUVCTD mission 2003.309.00 by user docker_user on host 671049448ece INFO 2025-06-26 05:42:55,635 process.py download_process():165 [1] Download and processing steps for 2003.309.00 INFO 2025-06-26 05:42:55,635 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003309/2003.309.00 INFO 2025-06-26 05:42:55,636 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003309/2003.309.00 to /data/auv_data/dorado/missionlogs/2003.309.00 INFO 2025-06-26 05:42:57,327 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.309.00 INFO 2025-06-26 05:42:57,328 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/ctdDriver.log (7122235 bytes) INFO 2025-06-26 05:42:57,849 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/ctdDriver2.log (7122317 bytes) INFO 2025-06-26 05:42:58,375 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/gps.log (67046 bytes) INFO 2025-06-26 05:42:58,391 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/hydroscatlog.log (4858034 bytes) INFO 2025-06-26 05:42:58,973 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/navigation.log (19827075 bytes) INFO 2025-06-26 05:43:00,396 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/isuslog.log (391349 bytes) INFO 2025-06-26 05:43:00,439 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/parosci.log (4860422 bytes) INFO 2025-06-26 05:43:00,854 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.309.00/tailCone.log (4859851 bytes) WARNING 2025-06-26 05:43:00,855 logs2netcdfs.py download_process_logs():795 [1] Failed to parse long_name & units from header in file /data/auv_data/dorado/missionlogs/2003.309.00/tailCone.log INFO 2025-06-26 05:43:00,855 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.53 seconds WARNING 2025-06-26 05:43:00,855 process.py download_process():196 [1] No lopc.bin file for 2003.309.00 INFO 2025-06-26 05:43:00,855 process.py calibrate():227 [1] Calibration steps for 2003.309.00 INFO 2025-06-26 05:43:01,063 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.309.00 INFO 2025-06-26 05:43:01,086 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 05:43:01,088 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:43:01,486 calibrate.py _nudge_pos():1806 [1] 59: 0.040 -0.0000515 0.0000386 95 0.31 -24.407 22.852 2003-11-05T04:00:45.355598080 INFO 2025-06-26 05:43:02,417 calibrate.py _nudge_pos():1806 [1] 158: 0.030 0.0000117 0.0000462 30 0.10 17.982 88.646 2003-11-05T04:02:29.358473472 INFO 2025-06-26 05:43:02,601 calibrate.py _nudge_pos():1806 [1] 176: 0.050 -0.0063039 0.0092409 11500 38.33 -24.422 44.674 2003-11-05T04:41:06.349748608 INFO 2025-06-26 05:43:03,174 calibrate.py _nudge_pos():1806 [1] 234: 0.040 -0.0000695 -0.0000490 35 0.11 -91.093 -80.177 2003-11-05T04:42:10.355363840 INFO 2025-06-26 05:43:03,250 calibrate.py _nudge_pos():1806 [1] 242: 0.040 -0.0050138 0.0100783 11525 38.41 -19.385 48.616 2003-11-05T05:20:42.356980864 INFO 2025-06-26 05:43:03,281 calibrate.py _nudge_pos():1806 [1] 245: 0.040 -0.0050339 0.0100923 40 0.13 -5751.247 14386.368 2003-11-05T05:20:52.356295936 INFO 2025-06-26 05:43:03,803 calibrate.py _nudge_pos():1806 [1] 298: 0.050 -0.0051500 0.0080295 11360 37.86 -20.206 39.296 2003-11-05T05:59:36.357090944 INFO 2025-06-26 05:43:04,251 calibrate.py _nudge_pos():1806 [1] 345: 0.050 -0.0000534 0.0000246 40 0.13 -61.027 35.037 2003-11-05T06:00:30.353392000 INFO 2025-06-26 05:43:04,338 calibrate.py _nudge_pos():1806 [1] 354: 0.050 -0.0041253 0.0054262 12050 40.16 -15.258 25.035 2003-11-05T06:40:48.357747328 INFO 2025-06-26 05:43:04,829 calibrate.py _nudge_pos():1806 [1] 405: 0.060 -0.0063378 0.0054365 12200 40.66 -23.152 24.774 2003-11-05T07:22:18.357170688 INFO 2025-06-26 05:43:05,290 calibrate.py _nudge_pos():1806 [1] 452: 0.060 -0.0055161 0.0035177 11500 38.33 -21.376 17.005 2003-11-05T08:01:24.356458752 INFO 2025-06-26 05:43:05,679 calibrate.py _nudge_pos():1806 [1] 492: 0.070 -0.0044815 0.0021947 11710 39.03 -17.054 10.420 2003-11-05T08:41:06.353280768 INFO 2025-06-26 05:43:06,145 calibrate.py _nudge_pos():1806 [1] 540: 0.070 -0.0011339 -0.0000335 2735 9.11 -18.480 -0.681 2003-11-05T08:51:00.352589056 INFO 2025-06-26 05:43:06,217 calibrate.py _nudge_pos():1806 [1] 547: 0.070 -0.0000785 0.0000282 60 0.20 -59.266 26.587 2003-11-05T08:51:18.351356032 INFO 2025-06-26 05:43:06,314 calibrate.py _nudge_pos():1806 [1] 557: 0.070 -0.0002665 -0.0000290 460 1.53 -25.868 -3.508 2003-11-05T08:53:00.354368384 INFO 2025-06-26 05:43:06,690 calibrate.py _nudge_pos():1806 [1] 595: 0.080 -0.0000356 0.0000087 20 0.06 -83.530 25.522 2003-11-05T08:53:41.351559936 INFO 2025-06-26 05:43:06,817 calibrate.py _nudge_pos():1806 [1] 608: 0.070 -0.0000584 -0.0000091 65 0.21 -40.658 -7.940 2003-11-05T08:54:06.349847296 INFO 2025-06-26 05:43:06,877 calibrate.py _nudge_pos():1806 [1] 614: 0.060 -0.0001159 0.0000006 100 0.33 -52.135 0.313 2003-11-05T08:54:31.358134144 INFO 2025-06-26 05:43:06,908 calibrate.py _nudge_pos():1806 [1] 617: 0.070 -0.0020776 -0.0001895 2325 7.75 -39.833 -4.532 2003-11-05T09:02:18.356142592 INFO 2025-06-26 05:43:07,407 calibrate.py _nudge_pos():1806 [1] 667: 0.070 -0.0000892 0.0000065 15 0.05 -284.052 25.763 2003-11-05T09:03:10.352580608 INFO 2025-06-26 05:43:07,486 calibrate.py _nudge_pos():1806 [1] 675: 0.070 -0.0011949 -0.0000267 875 2.91 -60.919 -1.701 2003-11-05T09:06:12.350112896 INFO 2025-06-26 05:43:07,616 calibrate.py _nudge_pos():1806 [1] 688: 0.060 -0.0001444 0.0000376 70 0.23 -93.260 30.295 2003-11-05T09:06:38.358331264 INFO 2025-06-26 05:43:07,656 calibrate.py _nudge_pos():1806 [1] 692: 0.070 -0.0001802 0.0000446 20 0.06 -422.594 130.464 2003-11-05T09:06:45.357851776 INFO 2025-06-26 05:43:07,705 calibrate.py _nudge_pos():1806 [1] 697: 0.060 -0.0001662 -0.0002553 35 0.11 -217.795 -417.452 2003-11-05T09:06:56.357098240 INFO 2025-06-26 05:43:07,871 calibrate.py _nudge_pos():1806 [1] 714: 0.070 -0.0001720 0.0000086 115 0.38 -67.231 4.187 2003-11-05T09:07:35.354426752 INFO 2025-06-26 05:43:07,949 calibrate.py _nudge_pos():1806 [1] 722: 0.060 -0.0001360 0.0001286 40 0.13 -155.414 183.265 2003-11-05T09:07:50.353399296 INFO 2025-06-26 05:43:08,088 calibrate.py _nudge_pos():1806 [1] 736: 0.070 -0.0001017 0.0000223 70 0.23 -65.703 17.996 2003-11-05T09:08:17.351549696 INFO 2025-06-26 05:43:08,327 calibrate.py _nudge_pos():1806 [1] 760: 0.060 -0.0002431 -0.0001756 60 0.20 -183.426 -165.353 2003-11-05T09:08:52.359151616 INFO 2025-06-26 05:43:08,435 calibrate.py _nudge_pos():1806 [1] 771: 0.060 0.0000012 0.0001206 40 0.13 1.392 171.848 2003-11-05T09:09:10.357918464 INFO 2025-06-26 05:43:08,486 calibrate.py _nudge_pos():1806 [1] 776: 0.060 -0.0002016 0.0000597 25 0.08 -374.217 138.383 2003-11-05T09:09:19.357302016 INFO 2025-06-26 05:43:08,583 calibrate.py _nudge_pos():1806 [1] 786: 0.070 -0.0004792 0.0000208 200 0.66 -107.312 5.816 2003-11-05T09:10:08.353945472 INFO 2025-06-26 05:43:08,604 calibrate.py _nudge_pos():1806 [1] 788: 0.070 -0.0007227 0.0000101 285 0.95 -113.398 1.986 2003-11-05T09:11:06.349972608 INFO 2025-06-26 05:43:09,165 calibrate.py _nudge_pos():1806 [1] 844: 0.070 -0.0001339 0.0000035 15 0.05 -426.214 14.053 2003-11-05T09:12:04.355998848 INFO 2025-06-26 05:43:09,187 calibrate.py _nudge_pos():1806 [1] 846: 0.070 -0.0002807 0.0000239 110 0.36 -114.739 12.195 2003-11-05T09:12:27.354423424 INFO 2025-06-26 05:43:09,247 calibrate.py _nudge_pos():1806 [1] 852: 0.070 -0.0003293 0.0000251 35 0.11 -431.600 41.049 2003-11-05T09:12:39.353601280 INFO 2025-06-26 05:43:09,316 calibrate.py _nudge_pos():1806 [1] 859: 0.070 -0.0007058 0.0000611 245 0.81 -128.900 13.926 2003-11-05T09:13:34.349833856 INFO 2025-06-26 05:43:09,395 calibrate.py _nudge_pos():1806 [1] 867: 0.060 -0.0008630 0.0000116 70 0.23 -557.332 9.315 2003-11-05T09:13:55.358394624 INFO 2025-06-26 05:43:09,416 calibrate.py _nudge_pos():1806 [1] 869: 0.070 -0.0013568 0.0000430 485 1.61 -124.916 4.935 2003-11-05T09:15:33.351681664 INFO 2025-06-26 05:43:09,447 calibrate.py _nudge_pos():1806 [1] 872: 0.070 -0.0013274 0.0000534 15 0.05 -4224.933 211.955 2003-11-05T09:15:38.351339264 INFO 2025-06-26 05:43:09,458 calibrate.py _nudge_pos():1806 [1] 873: 0.070 -0.0020192 -0.0000095 470 1.56 -191.819 -1.122 2003-11-05T09:17:12.354899584 INFO 2025-06-26 05:43:09,654 calibrate.py _nudge_pos():1806 [1] 893: 0.070 -0.0001437 -0.0000421 25 0.08 -266.799 -97.476 2003-11-05T09:17:36.353255552 INFO 2025-06-26 05:43:09,823 calibrate.py _nudge_pos():1806 [1] 910: 0.070 -0.0000974 0.0000709 15 0.05 -310.063 281.356 2003-11-05T09:17:55.351953920 INFO 2025-06-26 05:43:10,000 calibrate.py _nudge_pos():1806 [1] 928: 0.070 -0.0003263 0.0000640 35 0.11 -427.694 104.708 2003-11-05T09:18:19.350310016 INFO 2025-06-26 05:43:10,032 calibrate.py _nudge_pos():1806 [1] 931: 0.070 -0.0003356 0.0000370 20 0.06 -786.971 108.125 2003-11-05T09:18:25.349899008 INFO 2025-06-26 05:43:10,187 calibrate.py _nudge_pos():1806 [1] 947: 0.060 -0.0000815 -0.0000103 45 0.15 -82.502 -13.047 2003-11-05T09:18:49.358254336 INFO 2025-06-26 05:43:10,227 calibrate.py _nudge_pos():1806 [1] 951: 0.080 -0.0004916 -0.0000656 495 1.65 -44.342 -7.388 2003-11-05T09:20:31.351267328 INFO 2025-06-26 05:43:10,615 calibrate.py _nudge_pos():1806 [1] 991: 0.070 -0.0000555 -0.0000306 60 0.20 -41.886 -28.812 2003-11-05T09:21:22.357773184 INFO 2025-06-26 05:43:10,655 calibrate.py _nudge_pos():1806 [1] 995: 0.070 -0.0002214 -0.0000243 35 0.11 -290.180 -39.789 2003-11-05T09:21:32.357088128 INFO 2025-06-26 05:43:10,804 calibrate.py _nudge_pos():1806 [1] 1010: 0.070 -0.0021328 -0.0000465 1600 5.33 -59.431 -1.618 2003-11-05T09:27:06.354207744 INFO 2025-06-26 05:43:10,873 calibrate.py _nudge_pos():1806 [1] 1017: 0.070 -0.0024198 -0.0000095 300 1.00 -360.610 -1.770 2003-11-05T09:28:12.349686784 INFO 2025-06-26 05:43:10,903 calibrate.py _nudge_pos():1806 [1] 1020: 0.070 -0.0027339 -0.0000860 500 1.66 -244.103 -9.575 2003-11-05T09:29:54.352699008 INFO 2025-06-26 05:43:11,328 calibrate.py _nudge_pos():1806 [1] 1063: 0.080 0.0000051 0.0000167 25 0.08 9.429 38.581 2003-11-05T09:30:41.349479552 INFO 2025-06-26 05:43:11,369 calibrate.py _nudge_pos():1806 [1] 1067: 0.070 -0.0000789 0.0000137 30 0.10 -121.305 26.217 2003-11-05T09:30:50.358862464 INFO 2025-06-26 05:43:11,459 calibrate.py _nudge_pos():1806 [1] 1076: 0.070 -0.0000786 -0.0000100 75 0.25 -47.334 -7.526 2003-11-05T09:31:13.357286912 INFO 2025-06-26 05:43:11,480 calibrate.py _nudge_pos():1806 [1] 1078: 0.060 -0.0013328 0.0000187 1490 4.96 -39.882 0.697 2003-11-05T09:36:12.356803968 INFO 2025-06-26 05:43:11,707 calibrate.py _nudge_pos():1806 [1] 1101: 0.070 -0.0000992 0.0000067 110 0.36 -40.544 3.414 2003-11-05T09:36:56.353790080 INFO 2025-06-26 05:43:11,743 calibrate.py _nudge_pos():1862 [1] 1084: - - - 3 0.01 - - INFO 2025-06-26 05:43:11,743 calibrate.py _nudge_pos():1868 [1] Points in final series = 101150 WARNING 2025-06-26 05:43:11,824 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:43:12,578 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:43:13,312 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:43:13,903 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:43:13,905 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.309.00/ctd1.nc INFO 2025-06-26 05:43:13,906 calibrate.py _range_qc_combined_nc():898 [1] Setting 64 ctd1_salinity values to NaN INFO 2025-06-26 05:43:13,907 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 05:43:13,907 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:43:14,607 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:43:15,196 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:43:15,198 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.309.00/ctd2.nc INFO 2025-06-26 05:43:15,200 calibrate.py _range_qc_combined_nc():898 [1] Setting 89 ctd2_salinity values to NaN INFO 2025-06-26 05:43:15,200 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 05:43:15,200 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 05:43:15,215 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.309.00 ERROR 2025-06-26 05:43:15,216 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.309.00 ERROR 2025-06-26 05:43:15,216 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.309.00 ERROR 2025-06-26 05:43:15,216 calibrate.py process_logs():3542 [1] Error processing tailcone: tailcone has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.309.00 INFO 2025-06-26 05:43:15,217 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_cal.nc INFO 2025-06-26 05:43:15,293 calibrate.py write_netcdf():3512 [1] Data variables written: 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, time INFO 2025-06-26 05:43:15,297 process.py align():251 [1] Alignment steps for 2003.309.00 INFO 2025-06-26 05:43:15,323 align.py process_cal():139 [1] Processing dorado_2003.309.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.309.00 INFO 2025-06-26 05:43:15,353 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:43:15,357 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:43:15,431 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:43:15,436 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:43:15,507 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:43:15,512 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:43:15,556 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:43:15,556 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:43:15,585 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:43:15,589 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:43:15,660 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:43:15,665 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:15,728 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:43:15,732 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:15,796 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:43:15,801 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:15,865 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:15,869 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:15,932 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:15,936 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,000 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,005 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,068 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,072 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,135 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,139 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,203 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,207 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,272 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,276 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,341 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,347 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,410 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,415 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,478 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,482 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,545 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,550 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,615 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,620 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,684 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,688 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,753 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,757 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,824 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,828 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,893 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,898 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:16,962 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.309.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:43:16,966 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:43:17,036 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:43:17,081 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:43:17,126 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:43:17,141 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_align.nc INFO 2025-06-26 05:43:17,209 align.py write_netcdf():342 [1] Data variables written: 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 INFO 2025-06-26 05:43:17,212 process.py resample():273 [1] Resampling steps for 2003.309.00 INFO 2025-06-26 05:43:17,212 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:43:17,235 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_align.nc mission netCDF file INFO 2025-06-26 05:43:17,239 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_align.nc mission netCDF file INFO 2025-06-26 05:43:17,241 resample.py get_mission_start_end():1145 [1] navigation: 2003-11-05T03:59:50.159379200 to 2003-11-05T09:36:59.953543424 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 05:43:17,243 resample.py get_mission_start_end():1145 [1] hs2 : 2003-11-05T03:59:32.970556672 to 2003-11-05T09:37:00.023538560 (0 days 00:00:00.039997312 before mission_end) INFO 2025-06-26 05:43:17,244 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-11-05T03:59:49.009458048 to 2003-11-05T09:37:00.063535872 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:43:17,246 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-11-05T03:59:48.689479936 to 2003-11-05T09:36:59.993540608 (0 days 00:00:00.069995264 before mission_end) INFO 2025-06-26 05:43:17,247 resample.py get_mission_start_end():1145 [1] isus : 2003-11-05T04:00:45.975555584 to 2003-11-05T09:36:59.433579136 (0 days 00:00:00.629956736 before mission_end) INFO 2025-06-26 05:43:17,248 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_align.nc mission netCDF file INFO 2025-06-26 05:43:17,248 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,473 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,513 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,551 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,589 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,623 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,656 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,689 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,721 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,751 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,783 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,813 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,843 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,872 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,901 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,931 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,962 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:17,994 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,026 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,059 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,089 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,119 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,151 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,165 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,179 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,192 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:43:18,390 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_1S.nc INFO 2025-06-26 05:43:19,581 create_products.py gulper_odv():401 [1] No gulper times found for 2003.309.00 INFO 2025-06-26 05:43:19,581 process.py archive():337 [1] Archiving steps for 2003.309.00 INFO 2025-06-26 05:43:19,581 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00, BASE_PATH = /data/auv_data INFO 2025-06-26 05:43:19,582 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:43:19,583 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.309.00_1S.nc INFO 2025-06-26 05:43:19,603 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:43:19,604 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.309.00_cal.nc INFO 2025-06-26 05:43:19,692 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:43:19,694 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.309.00_align.nc INFO 2025-06-26 05:43:19,772 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:43:19,799 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,824 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,829 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,850 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,912 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,918 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,938 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003309/2003.309.00 done. INFO 2025-06-26 05:43:19,938 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:43:19,938 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.309.00/dorado_2003.309.00_processing.log /Volumes/AUVCTD/surveys/2003/netcdf