INFO 2025-06-26 13:36:52,857 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 13:36:52,857 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Kanna control tests around M0 - ctdToUse = ctd1 INFO 2025-06-26 13:36:52,857 process.py process_mission():449 [1] Processing AUVCTD mission 2007.264.09 by user docker_user on host eae60d30a712 INFO 2025-06-26 13:36:52,858 process.py download_process():165 [1] Download and processing steps for 2007.264.09 INFO 2025-06-26 13:36:52,858 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007264/2007.264.09 INFO 2025-06-26 13:36:52,858 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007264/2007.264.09 to /data/auv_data/dorado/missionlogs/2007.264.09 INFO 2025-06-26 13:36:55,955 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.264.09 INFO 2025-06-26 13:36:55,956 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/ctdDriver.log (4503290 bytes) INFO 2025-06-26 13:36:56,269 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.264.09/ctdDriver.log: [ 1704 7612 8192 17694 31998 34853] INFO 2025-06-26 13:36:56,281 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/ctdDriver2.log (4501076 bytes) INFO 2025-06-26 13:36:56,594 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.264.09/ctdDriver2.log: [ 6 304 14772 29743] INFO 2025-06-26 13:36:56,614 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/gps.log (49892 bytes) INFO 2025-06-26 13:36:56,627 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/hydroscatlog.log (2839694 bytes) INFO 2025-06-26 13:36:56,957 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.264.09/hydroscatlog.log: [ 1 8 34 138 141 160 237 327 328 387 415 416 512 515 747 749 823 841 848 899 1131 1525 1552 1586 1662 1767 2030 2382 2925 2926 3287 3653 3755 4389 4867 4955 5301 5642 5685 7230 7743 7842 8000 8003 8412 8466 8468 8620 8730 8876 9445 9456 9920 10450 10725 10787 11549 11715 12673 13622 14164 14196 14291 15030 15331 15334 15470 15517 15576 16375 17585 17975 18984 19305 19624 20102 22778 23072 23160 23289 23389 24037 24389 24577 26262 27099 27102 27283 27652 28027 28447 28448 28854 28897 30097 30634 30872 31528 32353 32354 35130 35167 38077 38079 38501 38517 38660 38662 38665 39119 39123 39351 41122 42039 42637 43240 43851 45784 45888 46029 46105 46109] INFO 2025-06-26 13:36:56,965 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/navigation.log (13846246 bytes) INFO 2025-06-26 13:36:57,966 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/isuslog.log (298933 bytes) INFO 2025-06-26 13:36:57,999 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/parosci.log (4619942 bytes) INFO 2025-06-26 13:36:58,383 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.264.09/parosci.log: [ 16 17 19 67 68 69 71 149 150 207 211 212 217 284 315 316 317 321 322 476 477 478 658 773 831 832 834 971 972 973 975 1028 1029 1030 1114 1115 1116 1117 1501 1502 1685 1701 1703 1830 1831 1832 1833 2061 2062 2213 2215 2216 2217 2269 2444 2445 2446 2447 3127 3128 3130 3196 3197 3198 3199 3561 3562 3936 4094 4095 4096 4097 4099 4503 4504 4505 4506 5025 5035 5036 5061 5901 5902 5903 5904 6639 6640 6641 6642 6756 6758 6762 6763 7163 7165 7166 7167 7168 7562 7564 7587 8365 8366 8368 8369 8870 8871 8872 8874 8878 9850 10786 10787 10788 10789 11259 11260 11261 11502 11503 11504 11529 11530 11531 12845 12846 14194 14195 14196 14654 14655 14657 14811 14812 14813 14831 14832 14833 14834 14836 14928 14929 15412 15413 15415 15416 15698 15699 15853 15854 15885 15886 15888 15889 15891 16080 16204 16205 16206 16207 17455 19137 19138 19157 19158 19159 19160 20104 20105 20106 20111 20501 21555 21556 21557 21558 21738 21739 21740 21741 23424 23425 23427 23756 23757 23758 24162 24164 24165 25701 25703 25704 25705 27075 27076 27077 27079 27080 28125 28741 28991 28992 28993 28994 30507 30508 31386 31387 31388 31389 31484 31485 31486 31488 31489 31490 31564 31565 31567 31568 31601 31629 31860 31861 31862 32652 32653 32654 32656 32657 34996 34997 34998 34999 35690 35691 35692 37722 37723 37724 39191 40690 40691 40692 40693 40813 40815 40816 40817 40818 42461 42462 42463 42465 42466 43037 43038 43039 43040 44798 44799 44800 44801 46267 46269 46272 46273 46274 46275 46593 46594 46598 46869 47290 47336 47337 47452 47490 47491 47492 48808 48809 48810 48811 48813 49529 49531 49914 53351 53352 53353 55073 55445 55446 55447 56137 56138 56140 56141 56142 56194 56195 56953 56954 57808 57810 57811 57812 57813 58436 58631 58636 58637 58639 58723 58724 58725 58726 61749 61751 62263 62264 62265 62541 62542 62544 62547 62548 62695 62696 62697 62701 62702 62703 62736 62737 62738 62740 62741 62971 65755 65756 69907 69908 69909 69911 71497 71498 73064 73065 73067 73068 73812 73813 73815 73816 73817 74572 74573 74574 74576 74577 75093 75094 75095 76686 76687 77431 77432 77437 77438 77970 77971 78318 78599 78604 78607 78608 78609 79544 79545 79546 80012 83624 83625 83626 83627 85498 85499 85500 86715 86716 86718 86719 86720 87951 87952 87954 91896 91897 92976 92977 92979 93344 93634 93635 93782 93784 93787 93788 93825 94040 94045 94046 94047 95816 95817 95818 95819] INFO 2025-06-26 13:36:58,400 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/tailCone.log (567883 bytes) INFO 2025-06-26 13:36:58,476 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.264.09/biolume.log (3224700 bytes) INFO 2025-06-26 13:36:58,780 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 13:36:58,956 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.00 seconds WARNING 2025-06-26 13:36:58,957 process.py download_process():196 [1] No lopc.bin file for 2007.264.09 INFO 2025-06-26 13:36:58,957 process.py calibrate():227 [1] Calibration steps for 2007.264.09 INFO 2025-06-26 13:36:59,087 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 13:36:59,088 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 13:36:59,595 calibrate.py _nudge_pos():1806 [1] 80: 0.170 -0.0000541 0.0003753 9029 30.51 -0.263 2.279 2007-09-21T19:43:41.949074688 INFO 2025-06-26 13:37:00,367 calibrate.py _nudge_pos():1806 [1] 162: 0.030 0.0015587 -0.0000992 9190 30.82 7.500 -0.596 2007-09-21T20:15:54.156709376 INFO 2025-06-26 13:37:01,161 calibrate.py _nudge_pos():1806 [1] 246: 0.020 0.0011372 0.0000949 9062 30.32 5.563 0.580 2007-09-21T20:47:36.356399872 INFO 2025-06-26 13:37:02,003 calibrate.py _nudge_pos():1806 [1] 332: 0.180 0.0011904 0.0003834 9161 30.66 5.758 2.317 2007-09-21T21:19:41.954487296 INFO 2025-06-26 13:37:02,767 calibrate.py _nudge_pos():1806 [1] 412: 0.180 0.0009985 -0.0003213 9236 30.88 4.796 -1.928 2007-09-21T21:51:53.952136448 INFO 2025-06-26 13:37:03,388 calibrate.py _nudge_pos():1806 [1] 478: 0.190 0.0001950 0.0003061 9065 30.31 0.954 1.871 2007-09-21T22:23:17.953073408 INFO 2025-06-26 13:37:04,107 calibrate.py _nudge_pos():1806 [1] 554: 0.180 0.0001484 0.0001567 757 2.53 8.700 11.479 2007-09-21T22:27:05.957454080 INFO 2025-06-26 13:37:05,332 calibrate.py _nudge_pos():1862 [1] 649: - - - 3 0.01 - - INFO 2025-06-26 13:37:05,332 calibrate.py _nudge_pos():1868 [1] Points in final series = 58658 WARNING 2025-06-26 13:37:06,967 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 13:37:13,223 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: -1 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 13:37:16,596 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 21 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 13:37:16,957 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 21 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 13:37:16,959 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.264.09/ctd1.nc INFO 2025-06-26 13:37:16,960 calibrate.py _range_qc_combined_nc():898 [1] Setting 2 ctd1_salinity values to NaN INFO 2025-06-26 13:37:16,960 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 13:37:16,960 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 13:37:19,555 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:37:19,904 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:37:19,907 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.264.09/ctd2.nc INFO 2025-06-26 13:37:19,908 calibrate.py _range_qc_combined_nc():898 [1] Setting 4 ctd2_salinity values to NaN INFO 2025-06-26 13:37:19,908 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 13:37:19,908 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 13:37:19,931 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 13:37:20,454 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 707601 707602 707603] INFO 2025-06-26 13:37:20,559 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -9 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 13:37:20,564 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 13:37:20,565 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.264.09 ERROR 2025-06-26 13:37:20,565 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.264.09 INFO 2025-06-26 13:37:20,577 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_cal.nc INFO 2025-06-26 13:37:25,690 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, 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 13:37:25,694 process.py align():251 [1] Alignment steps for 2007.264.09 INFO 2025-06-26 13:37:25,720 align.py process_cal():139 [1] Processing dorado_2007.264.09_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.264.09 INFO 2025-06-26 13:37:25,739 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:37:25,742 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.97 INFO 2025-06-26 13:37:25,786 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:37:25,790 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.97 INFO 2025-06-26 13:37:25,833 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:37:25,838 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.97 INFO 2025-06-26 13:37:25,864 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 13:37:25,864 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 13:37:25,881 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:37:25,884 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.97 INFO 2025-06-26 13:37:25,928 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:25,932 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:37:25,971 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:25,974 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:37:26,014 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,017 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:37:26,061 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,064 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,104 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,108 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,146 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,150 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,189 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,193 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,232 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,235 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,275 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,278 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,316 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,320 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,360 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,364 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,403 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,406 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,445 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,448 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,486 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,490 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,530 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,534 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,573 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,577 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,616 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,620 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,658 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,662 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,702 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,706 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,744 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,748 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,789 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,792 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,832 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.264.09_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:37:26,835 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 13:37:26,883 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:37:26,918 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:37:26,952 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:37:26,988 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 13:37:27,024 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 13:37:27,040 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_align.nc INFO 2025-06-26 13:37:27,103 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, 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 13:37:27,105 process.py resample():273 [1] Resampling steps for 2007.264.09 INFO 2025-06-26 13:37:27,106 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 13:37:27,130 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_align.nc mission netCDF file INFO 2025-06-26 13:37:27,135 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_align.nc mission netCDF file INFO 2025-06-26 13:37:27,136 resample.py get_mission_start_end():1145 [1] navigation: 2007-09-21T19:12:24.397695744 to 2007-09-21T22:29:12.548782080 (0 days 00:00:00.009999360 before mission_end) INFO 2025-06-26 13:37:27,138 resample.py get_mission_start_end():1145 [1] hs2 : 2007-09-21T19:11:58.439474176 to 2007-09-21T22:29:12.538782720 (0 days 00:00:00.019998720 before mission_end) INFO 2025-06-26 13:37:27,139 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-09-21T19:12:20.307975936 to 2007-09-21T22:29:12.558781440 (0 days 00:00:00 before mission_end) INFO 2025-06-26 13:37:27,141 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-09-21T19:12:20.417968384 to 2007-09-21T22:29:12.388793088 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 13:37:27,142 resample.py get_mission_start_end():1145 [1] isus : 2007-09-21T19:13:10.054567936 to 2007-09-21T22:29:11.738837504 (0 days 00:00:00.819943936 before mission_end) INFO 2025-06-26 13:37:27,143 resample.py get_mission_start_end():1145 [1] biolume : 2007-09-21T19:11:49.730036480 to 2007-09-21T22:29:11.578814208 (0 days 00:00:00.979967232 before mission_end) INFO 2025-06-26 13:37:27,144 resample.py get_mission_start_end():1145 [1] tailcone : 2007-09-21T19:11:57.329550080 to 2007-09-21T22:29:11.888827392 (0 days 00:00:00.669954048 before mission_end) INFO 2025-06-26 13:37:27,145 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_align.nc mission netCDF file INFO 2025-06-26 13:37:27,145 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,288 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,314 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,340 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,365 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,388 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,411 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,433 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,455 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,475 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,496 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,516 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,537 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,557 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,577 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,598 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,619 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,639 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,662 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,685 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,707 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,729 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,752 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,774 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,797 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,810 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,822 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,834 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,847 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:27,859 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 13:37:28,022 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_1S.nc INFO 2025-06-26 13:37:29,704 create_products.py gulper_odv():401 [1] No gulper times found for 2007.264.09 INFO 2025-06-26 13:37:29,704 process.py archive():337 [1] Archiving steps for 2007.264.09 INFO 2025-06-26 13:37:29,704 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09, BASE_PATH = /data/auv_data INFO 2025-06-26 13:37:29,704 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 13:37:29,706 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.264.09_1S.nc INFO 2025-06-26 13:37:29,721 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:37:29,722 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.264.09_cal.nc INFO 2025-06-26 13:37:29,773 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:37:29,774 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.264.09_align.nc INFO 2025-06-26 13:37:29,818 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:37:29,835 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,853 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,857 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,869 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,908 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,914 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,930 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,938 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,971 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007264/2007.264.09 done. INFO 2025-06-26 13:37:29,972 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 13:37:29,972 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.264.09/dorado_2007.264.09_processing.log /Volumes/AUVCTD/surveys/2007/netcdf