INFO 2025-06-26 13:40:37,669 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 13:40:37,669 process.py process_mission():434 [1] dorado_info[mission]["comment"] = OCCO mission - Tight box survey about ESP site - ctdToUse = ctd1 INFO 2025-06-26 13:40:37,669 process.py process_mission():449 [1] Processing OCCO mission 2007.268.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 13:40:37,669 process.py download_process():165 [1] Download and processing steps for 2007.268.01 INFO 2025-06-26 13:40:37,670 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007268/2007.268.01 INFO 2025-06-26 13:40:37,670 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007268/2007.268.01 to /data/auv_data/dorado/missionlogs/2007.268.01 INFO 2025-06-26 13:40:41,673 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.268.01 INFO 2025-06-26 13:40:41,673 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/ctdDriver.log (10480403 bytes) INFO 2025-06-26 13:40:42,418 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.268.01/ctdDriver.log: [ 6 15 224 395 459 650 684 729 734 796 1014 1562 1746 1759 2161 2289 2360 2695 3481 3683 4030 4078 4359 4800 5118 5215 5520 6083 6281 6563 7032 7236 7517 8793 9335 10820 11189 11328 11699 11722 14745 16194 16210 16438 16898 16998 17538 17694 22193 22927 24724 25327 25497 34123 36362 38236 39931 42813 42888 49795 52280 55445 55930 56510 57041 58180 58582 60230 61271 61304 64312 64550 67654 69940 75495 79440 80764 82609 90721 96371 96589 96830 99878 103512 109687 117996] INFO 2025-06-26 13:40:42,451 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/ctdDriver2.log (10479429 bytes) INFO 2025-06-26 13:40:43,206 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.268.01/ctdDriver2.log: [ 4 212 383 447 638 672 717 722 783 813 1001 1548 1732 1745 2147 2275 2346 2681 3407 3668 4015 4063 4344 4785 5103 5504 6067 6265 7220 7501 7642 8777 9319 10804 10904 11173 11251 11312 11705 11861 14728 16177 16193 16421 16881 16981 17676 19483 20190 22909 24706 25309 25480 30177 34108 38222 39917 42799 42874 49781 52266 55431 55916 56497 58569 61258 61291 61822 64299 64537 67641 69927 76642 79427 80751 82596 84952 90709 96360 96578 96819 99868 100207 103501 109677 117056 117986] INFO 2025-06-26 13:40:43,255 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/gps.log (132476 bytes) INFO 2025-06-26 13:40:43,277 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/hydroscatlog.log (7160714 bytes) INFO 2025-06-26 13:40:44,129 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.268.01/hydroscatlog.log: [ 3 12 27 28 58 67 76 79 89 256 292 293 304 465 466 498 510 532 533 680 712 725 760 761 805 810 811 827 839 874 875 905 906 1087 1096 1097 1109 1226 1328 1535 1586 1620 1638 1653 1839 1879 1998 2189 2259 2329 2334 2387 2391 2402 2428 2465 2788 2802 2997 3345 3459 3532 3594 3755 3756 3797 3958 4195 4246 4478 4764 4853 4919 4957 5137 5241 5338 5360 5491 5645 5910 6211 6307 6411 6412 7161 7367 7376 7647 7651 7942 8490 8811 8929 10582 10807 10915 10961 11333 11413 11610 11847 11870 12028 13515 14896 16317 16347 16437 16592 17036 17153 17693 17850 18741 19162 19476 19661 20369 22007 23003 23090 24887 25491 25497 25599 25663 25868 26458 26459 27186 27982 28636 29817 30364 32986 34296 34297 34406 34698 34882 36540 36936 37145 37146 37328 38175 38213 38420 38453 40117 41625 42219 43000 43075 43270 45208 51567 52472 54348 55637 55982 56123 56705 57235 57286 58375 58779 59762 60429 61470 62035 63426 64515 64516 64752 67857 68587 69275 69856 70145 71045 71046 71445 72260 75702 79646 79760 80970 80971 82817 83577 85173 87265 89931 90293 90935 90936 90950 91318 96586 96587 96804 97047 98275 99864 100097 100438 101255 101594 104172 106305 109715 109787 109912 110455 111141 111188 111291 117169 117172 117176 117178 117180 118236 118237 118415] INFO 2025-06-26 13:40:44,154 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/navigation.log (35086482 bytes) INFO 2025-06-26 13:40:46,739 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/isuslog.log (756885 bytes) INFO 2025-06-26 13:40:46,814 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.268.01/isuslog.log: [1 2 3 4 5 6 7 8 9] INFO 2025-06-26 13:40:46,816 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/parosci.log (12522422 bytes) INFO 2025-06-26 13:40:47,951 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/tailCone.log (1454971 bytes) INFO 2025-06-26 13:40:48,140 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.268.01/biolume.log (8126412 bytes) INFO 2025-06-26 13:40:48,919 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 13:40:49,352 logs2netcdfs.py download_process_logs():807 [1] Time to process: 7.68 seconds WARNING 2025-06-26 13:40:49,353 process.py download_process():196 [1] No lopc.bin file for 2007.268.01 INFO 2025-06-26 13:40:49,353 process.py calibrate():227 [1] Calibration steps for 2007.268.01 INFO 2025-06-26 13:40:49,580 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 13:40:49,582 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 13:40:50,460 calibrate.py _nudge_pos():1806 [1] 120: 0.060 0.0000638 -0.0000234 942 3.26 2.896 -1.326 2007-09-25T21:13:23.629469184 INFO 2025-06-26 13:40:51,146 calibrate.py _nudge_pos():1806 [1] 193: 0.060 0.0001690 0.0002474 10138 34.20 0.732 1.340 2007-09-25T21:48:47.633965056 INFO 2025-06-26 13:40:51,843 calibrate.py _nudge_pos():1806 [1] 266: 0.060 -0.0001190 0.0000215 30 0.10 -182.088 41.130 2007-09-25T21:50:05.638621440 INFO 2025-06-26 13:40:51,862 calibrate.py _nudge_pos():1806 [1] 268: 0.070 0.0010178 -0.0000597 2338 7.88 19.131 -1.403 2007-09-25T21:57:59.636150272 INFO 2025-06-26 13:40:52,429 calibrate.py _nudge_pos():1806 [1] 327: 0.070 0.0000197 -0.0000016 15 0.05 62.550 -6.506 2007-09-25T21:59:00.631971840 INFO 2025-06-26 13:40:52,580 calibrate.py _nudge_pos():1806 [1] 343: 0.080 0.0001384 -0.0002598 9939 33.23 0.617 -1.449 2007-09-25T22:32:29.634345728 INFO 2025-06-26 13:40:53,377 calibrate.py _nudge_pos():1806 [1] 426: 0.070 0.0007722 0.0000659 1959 6.53 17.517 1.869 2007-09-25T22:40:23.631874560 INFO 2025-06-26 13:40:53,983 calibrate.py _nudge_pos():1806 [1] 489: 0.080 0.0000490 0.0002877 9920 33.16 0.219 1.608 2007-09-25T23:14:35.631303168 INFO 2025-06-26 13:40:54,671 calibrate.py _nudge_pos():1806 [1] 560: 0.080 0.0011267 0.0000698 2558 8.53 19.568 1.516 2007-09-25T23:24:17.631433216 INFO 2025-06-26 13:40:55,282 calibrate.py _nudge_pos():1806 [1] 624: 0.070 0.0001751 -0.0002680 10274 34.35 0.755 -1.446 2007-09-25T23:59:41.635929088 INFO 2025-06-26 13:40:56,033 calibrate.py _nudge_pos():1806 [1] 702: 0.080 0.0007990 -0.0000274 1982 6.61 17.899 -0.769 2007-09-26T00:07:35.633457920 INFO 2025-06-26 13:40:56,741 calibrate.py _nudge_pos():1806 [1] 776: 0.080 -0.0000371 0.0002189 9704 32.38 -0.170 1.253 2007-09-26T00:41:11.635352320 INFO 2025-06-26 13:40:57,811 calibrate.py _nudge_pos():1806 [1] 886: 0.080 0.0001987 0.0000636 8975 29.98 0.982 0.393 2007-09-26T01:12:59.634645504 INFO 2025-06-26 13:40:58,510 calibrate.py _nudge_pos():1806 [1] 958: 0.080 0.0000366 -0.0000058 3809 12.71 0.426 -0.084 2007-09-26T01:26:53.637512448 INFO 2025-06-26 13:40:59,216 calibrate.py _nudge_pos():1806 [1] 1029: 0.090 0.0000213 0.0003426 10253 34.23 0.092 1.855 2007-09-26T02:02:17.632008704 INFO 2025-06-26 13:40:59,912 calibrate.py _nudge_pos():1806 [1] 1100: 0.090 0.0010336 -0.0000153 2406 8.03 19.065 -0.354 2007-09-26T02:11:29.634193920 INFO 2025-06-26 13:41:00,625 calibrate.py _nudge_pos():1806 [1] 1172: 0.090 0.0001711 -0.0002465 10044 33.51 0.756 -1.363 2007-09-26T02:46:11.631567360 INFO 2025-06-26 13:41:01,353 calibrate.py _nudge_pos():1806 [1] 1246: 0.090 0.0009022 0.0000713 2241 7.48 17.866 1.766 2007-09-26T02:54:53.635807744 INFO 2025-06-26 13:41:01,992 calibrate.py _nudge_pos():1806 [1] 1310: 0.090 -0.0000101 0.0003159 10109 33.75 -0.044 1.734 2007-09-26T03:29:41.632770048 INFO 2025-06-26 13:41:02,830 calibrate.py _nudge_pos():1806 [1] 1395: 0.090 0.0010015 -0.0000226 2130 7.10 20.905 -0.591 2007-09-26T03:38:11.637832448 INFO 2025-06-26 13:41:03,541 calibrate.py _nudge_pos():1806 [1] 1466: 0.100 0.0001515 -0.0001945 9468 31.63 0.710 -1.140 2007-09-26T04:10:59.633015296 INFO 2025-06-26 13:41:04,539 calibrate.py _nudge_pos():1806 [1] 1564: 0.100 0.0008213 0.0000505 1793 5.98 20.346 1.564 2007-09-26T04:18:35.631777280 INFO 2025-06-26 13:41:04,620 calibrate.py _nudge_pos():1806 [1] 1572: 0.100 -0.0000098 -0.0000141 110 0.36 -3.998 -7.191 2007-09-26T04:19:04.629790720 INFO 2025-06-26 13:41:05,587 calibrate.py _nudge_pos():1806 [1] 1667: 0.100 -0.0001023 0.0002266 10102 33.75 -0.449 1.244 2007-09-26T04:54:23.634629120 INFO 2025-06-26 13:41:06,468 calibrate.py _nudge_pos():1806 [1] 1752: 0.110 0.0001903 0.0000672 8618 28.80 0.979 0.432 2007-09-26T05:24:35.630498816 INFO 2025-06-26 13:41:07,250 calibrate.py _nudge_pos():1862 [1] 1793: - - - 2 0.00 - - INFO 2025-06-26 13:41:07,250 calibrate.py _nudge_pos():1868 [1] Points in final series = 148663 WARNING 2025-06-26 13:41:07,452 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 9.09 Hz INFO 2025-06-26 13:41:23,748 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 9 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:41:32,482 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:41:33,414 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:41:33,417 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.268.01/ctd1.nc INFO 2025-06-26 13:41:33,418 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 13:41:33,418 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 13:41:33,419 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 13:41:40,167 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:41:41,055 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:41:41,058 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.268.01/ctd2.nc INFO 2025-06-26 13:41:41,059 calibrate.py _range_qc_combined_nc():898 [1] Setting 149 ctd2_salinity values to NaN INFO 2025-06-26 13:41:41,060 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 13:41:41,060 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 13:41:42,191 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 13:41:43,538 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 1791664 1791665 1791666] INFO 2025-06-26 13:41:43,799 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -6 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 13:41:43,805 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 13:41:43,805 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.268.01 ERROR 2025-06-26 13:41:43,805 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.268.01 INFO 2025-06-26 13:41:43,833 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_cal.nc INFO 2025-06-26 13:41:53,034 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 13:41:53,038 process.py align():251 [1] Alignment steps for 2007.268.01 INFO 2025-06-26 13:41:53,069 align.py process_cal():139 [1] Processing dorado_2007.268.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.268.01 INFO 2025-06-26 13:41:53,111 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:41:53,117 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:41:53,213 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:41:53,219 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:41:53,315 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:41:53,322 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:41:53,382 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 13:41:53,383 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 13:41:53,420 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:41:53,426 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:41:53,522 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,528 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:53,611 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,617 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:53,701 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,707 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:53,791 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,797 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:53,881 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,887 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:53,973 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:53,979 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,064 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,070 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,159 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,167 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,272 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,277 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,360 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,367 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,451 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,457 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,541 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,546 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,631 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,636 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,720 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,726 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,812 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,818 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,901 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:54,909 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:54,995 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:55,001 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:55,088 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:55,093 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:55,178 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:55,183 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:55,267 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.268.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:41:55,273 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:41:55,374 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:41:55,441 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:41:55,509 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.79 INFO 2025-06-26 13:41:55,580 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 13:41:55,652 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.01 INFO 2025-06-26 13:41:55,675 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_align.nc INFO 2025-06-26 13:41:55,765 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 13:41:55,767 process.py resample():273 [1] Resampling steps for 2007.268.01 INFO 2025-06-26 13:41:55,768 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 13:41:55,795 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_align.nc mission netCDF file INFO 2025-06-26 13:41:55,801 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_align.nc mission netCDF file INFO 2025-06-26 13:41:55,803 resample.py get_mission_start_end():1145 [1] navigation: 2007-09-25T21:08:43.508658944 to 2007-09-26T05:25:51.035333376 (0 days 00:00:00.009999360 before mission_end) INFO 2025-06-26 13:41:55,805 resample.py get_mission_start_end():1145 [1] hs2 : 2007-09-25T21:08:24.389968640 to 2007-09-26T05:25:51.045332736 (0 days 00:00:00 before mission_end) INFO 2025-06-26 13:41:55,806 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-09-25T21:08:39.638923776 to 2007-09-26T05:25:51.005335296 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 13:41:55,808 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-09-25T21:08:42.648717824 to 2007-09-26T05:25:50.965338112 (0 days 00:00:00.079994624 before mission_end) INFO 2025-06-26 13:41:55,810 resample.py get_mission_start_end():1145 [1] isus : 2007-09-25T21:09:10.746792960 to 2007-09-26T05:25:50.795349760 (0 days 00:00:00.249982976 before mission_end) INFO 2025-06-26 13:41:55,811 resample.py get_mission_start_end():1145 [1] biolume : 2007-09-25T21:08:09.340965376 to 2007-09-26T05:25:50.315348480 (0 days 00:00:00.729984256 before mission_end) INFO 2025-06-26 13:41:55,813 resample.py get_mission_start_end():1145 [1] tailcone : 2007-09-25T21:08:17.640430848 to 2007-09-26T05:25:50.785350400 (0 days 00:00:00.259982336 before mission_end) INFO 2025-06-26 13:41:55,813 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_align.nc mission netCDF file INFO 2025-06-26 13:41:55,814 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,133 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,187 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,240 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,294 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,342 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,388 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,433 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,477 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,519 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,561 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,603 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,646 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,687 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,729 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,771 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,813 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,858 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,904 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,951 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:56,996 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,042 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,086 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,108 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,125 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,142 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,162 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,182 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 13:41:57,440 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_1S.nc INFO 2025-06-26 13:41:58,996 create_products.py gulper_odv():401 [1] No gulper times found for 2007.268.01 INFO 2025-06-26 13:41:58,996 process.py archive():337 [1] Archiving steps for 2007.268.01 INFO 2025-06-26 13:41:58,996 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01, BASE_PATH = /data/auv_data INFO 2025-06-26 13:41:58,998 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 13:41:58,999 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.268.01_1S.nc INFO 2025-06-26 13:41:59,025 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:41:59,027 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.268.01_cal.nc INFO 2025-06-26 13:41:59,145 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:41:59,146 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.268.01_align.nc INFO 2025-06-26 13:41:59,254 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:41:59,286 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,316 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,321 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,344 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,439 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,447 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,481 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,492 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,575 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007268/2007.268.01 done. INFO 2025-06-26 13:41:59,575 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 13:41:59,575 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.268.01/dorado_2007.268.01_processing.log /Volumes/AUVCTD/surveys/2007/netcdf