INFO 2025-06-26 11:46:33,935 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 11:46:33,935 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - as part of MB06 - Chavez survey for MB06 to fill in spots where glider's aren't going - ctdToUse = ctd1 INFO 2025-06-26 11:46:33,935 process.py process_mission():449 [1] Processing AUVCTD mission 2006.234.02 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:46:33,935 process.py download_process():165 [1] Download and processing steps for 2006.234.02 INFO 2025-06-26 11:46:33,935 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006234/2006.234.02 INFO 2025-06-26 11:46:33,935 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006234/2006.234.02 to /data/auv_data/dorado/missionlogs/2006.234.02 INFO 2025-06-26 11:46:40,641 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.234.02 INFO 2025-06-26 11:46:40,642 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/ctdDriver.log (24582667 bytes) INFO 2025-06-26 11:46:42,439 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.234.02/ctdDriver.log: [ 363 747 2739 3346 8364 8454 9413 9966 14145 31303 44161 48532 58744 62470 62852 72385 74483 82514 96647 97649 99231 105818 107378 111104 111649 130482 139970 141645 148111 156251 201631 205122 221463 228631 243073 243199 258157 267289] INFO 2025-06-26 11:46:42,516 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/ctdDriver2.log (24582309 bytes) INFO 2025-06-26 11:46:44,273 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.234.02/ctdDriver2.log: [ 364 462 748 2741 6485 8456 9415 9968 14147 14608 44163 48534 58746 59156 62472 62854 72387 74485 82516 96647 99231 107378 111104 130478 133201 139966 141641 148107 156247 205118 221459 224123 228627 243195 255197 267285] INFO 2025-06-26 11:46:44,360 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/gps.log (90572 bytes) INFO 2025-06-26 11:46:44,379 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/hydroscatlog.log (16758854 bytes) INFO 2025-06-26 11:46:46,358 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.234.02/hydroscatlog.log: [ 3 86 355 844 962 1096 2910 2964 3772 4421 4578 6591 7615 9507 12056 13109 13875 15475 27789 33796 62408 66722 69268 105864 107424 111914 119022 119189 126129 127656 134992 136068 138694 140475 149165 151444 159886 175882 197205 210482 224116 228617 229606 231612 232746 243051 243177 246597 254066 258126 260840 267254 269080 272045 274463] INFO 2025-06-26 11:46:46,415 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/navigation.log (82382534 bytes) INFO 2025-06-26 11:46:52,382 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/isuslog.log (1671125 bytes) INFO 2025-06-26 11:46:52,547 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/parosci.log (35899814 bytes) INFO 2025-06-26 11:46:55,515 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.234.02/parosci.log: [ 1 2 16 18 19 37 39 40 52 53 68 223 229 315 763 991 1381 1402 2274 2295 2747 2896 2972 2973 3015 3016 4288 4867 4868 5888 5889 5970 5971 7804 8803 8804 9232 9233 9237 11320 11321 11391 11851 11852 13712 13841 13842 14884 15152 15153 17624 17625 17660 17661 17724 17725 20395 20396 20753 22212 22652 22743 26315 26932 26933 26934 27749 27750 29614 29616 31120 32272 37140 37141 40297 40298 48682 51229 51472 60360 63728 67823 67824 69935 71952 74363 76859 79611 79612 89513 89514 90256 90435 90436 90437 117285 123301 123302 148861 161302 166993 183995 184278 185348 223384 236624 238697 238698 254373 258891 266789 266790 277610 277611 280509 298064 298066 298955 298956 299550 300466 309371 318612 319059 319060 331207 339148 341755 359230 361415 364293 371346 371347 381083 385445 385446 399419 399420 405516 405517 410932 419493 428133 428134 429136 429137 432034 440256 451964 465051 465052 465053 471006 472827 472828 479739 483851 489099 491974 514630 514632 527680 528160 540007 540008 547198 552930 552932 555818 558772 558773 560097 571237 576541 580194 593143 600284 600285 600981 600982 603899 614979 614980 616765 620349 642405 642406 647589 652431 660446 680474 680475 691280 691281 691282 691808 718442 728504 734971 734972 734973 740623 745925 745926 747301] INFO 2025-06-26 11:46:55,617 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/tailCone.log (16746715 bytes) INFO 2025-06-26 11:46:57,700 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.234.02/biolume.log (19007500 bytes) INFO 2025-06-26 11:46:59,586 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:47:00,589 logs2netcdfs.py download_process_logs():807 [1] Time to process: 19.95 seconds WARNING 2025-06-26 11:47:00,590 process.py download_process():196 [1] No lopc.bin file for 2006.234.02 INFO 2025-06-26 11:47:00,590 process.py calibrate():227 [1] Calibration steps for 2006.234.02 INFO 2025-06-26 11:47:01,080 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 11:47:01,082 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:47:01,257 calibrate.py _nudge_pos():1806 [1] 32: 0.030 0.0000288 -0.0000037 15 0.05 91.168 -14.701 2006-08-22T17:46:13.212896512 INFO 2025-06-26 11:47:01,733 calibrate.py _nudge_pos():1806 [1] 78: 0.030 -0.0006340 -0.0000104 2094 7.01 -13.348 -0.275 2006-08-22T17:53:59.210973440 INFO 2025-06-26 11:47:01,983 calibrate.py _nudge_pos():1806 [1] 102: 0.030 -0.0038129 0.0033125 15096 50.41 -11.171 12.176 2006-08-22T18:44:47.212171264 INFO 2025-06-26 11:47:02,502 calibrate.py _nudge_pos():1806 [1] 152: 0.050 -0.0044468 0.0028751 14752 49.18 -13.359 10.833 2006-08-22T19:34:47.206657536 INFO 2025-06-26 11:47:02,855 calibrate.py _nudge_pos():1806 [1] 186: 0.050 -0.0042302 0.0025517 13815 46.06 -13.572 10.265 2006-08-22T20:21:24.205050112 INFO 2025-06-26 11:47:03,397 calibrate.py _nudge_pos():1806 [1] 238: 0.060 -0.0040984 0.0027026 14373 47.93 -12.641 10.448 2006-08-22T21:10:11.204536832 INFO 2025-06-26 11:47:03,690 calibrate.py _nudge_pos():1806 [1] 266: 0.060 -0.0028305 0.0011778 9643 32.15 -13.019 6.789 2006-08-22T21:42:47.210541312 INFO 2025-06-26 11:47:04,219 calibrate.py _nudge_pos():1806 [1] 316: 0.050 -0.0031121 -0.0014045 15735 52.46 -8.775 -4.961 2006-08-22T22:36:04.211531520 INFO 2025-06-26 11:47:04,263 calibrate.py _nudge_pos():1806 [1] 320: 0.050 -0.0000257 0.0000038 20 0.06 -60.097 11.188 2006-08-22T22:36:11.211052288 INFO 2025-06-26 11:47:04,705 calibrate.py _nudge_pos():1806 [1] 362: 0.050 -0.0018134 -0.0020153 14252 47.51 -5.648 -7.860 2006-08-22T23:24:23.212936448 INFO 2025-06-26 11:47:05,185 calibrate.py _nudge_pos():1806 [1] 407: 0.050 0.0002577 -0.0020209 7246 24.16 1.578 -15.498 2006-08-22T23:49:17.210590720 INFO 2025-06-26 11:47:05,536 calibrate.py _nudge_pos():1806 [1] 440: 0.050 0.0005811 -0.0019063 9707 32.36 2.658 -10.915 2006-08-23T00:22:11.205362688 INFO 2025-06-26 11:47:05,917 calibrate.py _nudge_pos():1806 [1] 475: 0.060 0.0046012 -0.0019161 12966 43.23 15.762 -8.213 2006-08-23T01:05:59.205332224 INFO 2025-06-26 11:47:06,272 calibrate.py _nudge_pos():1806 [1] 508: 0.060 0.0046497 -0.0025689 13007 43.36 15.883 -10.977 2006-08-23T01:49:53.204890880 INFO 2025-06-26 11:47:06,632 calibrate.py _nudge_pos():1806 [1] 541: 0.070 0.0056124 -0.0031175 13336 44.46 18.703 -12.992 2006-08-23T02:34:53.209927936 INFO 2025-06-26 11:47:07,019 calibrate.py _nudge_pos():1806 [1] 577: 0.060 0.0041917 -0.0027086 9571 31.91 19.467 -15.727 2006-08-23T03:07:23.206344192 INFO 2025-06-26 11:47:07,411 calibrate.py _nudge_pos():1806 [1] 613: 0.060 0.0064002 -0.0041526 13231 44.11 21.509 -17.443 2006-08-23T03:52:05.212614144 INFO 2025-06-26 11:47:07,727 calibrate.py _nudge_pos():1806 [1] 642: 0.070 0.0045246 -0.0035144 9639 32.13 20.882 -20.268 2006-08-23T04:24:41.208619008 INFO 2025-06-26 11:47:08,009 calibrate.py _nudge_pos():1806 [1] 668: 0.070 0.0064811 -0.0046930 12320 41.08 23.402 -21.169 2006-08-23T05:06:11.208042496 INFO 2025-06-26 11:47:08,389 calibrate.py _nudge_pos():1806 [1] 703: 0.070 0.0054857 -0.0046944 11678 38.93 20.907 -22.345 2006-08-23T05:45:41.205686528 INFO 2025-06-26 11:47:08,793 calibrate.py _nudge_pos():1806 [1] 740: 0.070 0.0020766 -0.0019189 4889 16.30 18.909 -21.819 2006-08-23T06:02:35.206222848 INFO 2025-06-26 11:47:09,174 calibrate.py _nudge_pos():1806 [1] 775: 0.070 0.0021480 -0.0024542 6818 22.73 14.024 -20.007 2006-08-23T06:25:53.210452992 INFO 2025-06-26 11:47:09,592 calibrate.py _nudge_pos():1806 [1] 813: 0.080 0.0014533 0.0003268 19813 66.06 3.263 0.917 2006-08-23T07:32:34.206365952 INFO 2025-06-26 11:47:10,166 calibrate.py _nudge_pos():1806 [1] 862: 0.080 0.0008133 -0.0008113 13202 44.01 2.741 -3.416 2006-08-23T08:17:23.212156416 INFO 2025-06-26 11:47:10,568 calibrate.py _nudge_pos():1806 [1] 898: 0.080 -0.0041009 0.0011063 18931 63.11 -9.633 3.248 2006-08-23T09:21:05.210331648 INFO 2025-06-26 11:47:11,184 calibrate.py _nudge_pos():1806 [1] 954: 0.080 -0.0019186 0.0018268 13100 43.68 -6.511 7.750 2006-08-23T10:05:41.207013376 INFO 2025-06-26 11:47:11,829 calibrate.py _nudge_pos():1806 [1] 1012: 0.080 -0.0028646 0.0022363 12702 42.35 -10.024 9.786 2006-08-23T10:48:59.209038080 INFO 2025-06-26 11:47:12,361 calibrate.py _nudge_pos():1806 [1] 1060: 0.080 -0.0017314 0.0014671 8734 29.11 -8.811 9.338 2006-08-23T11:18:53.206140672 INFO 2025-06-26 11:47:12,881 calibrate.py _nudge_pos():1806 [1] 1107: 0.080 -0.0014324 0.0011972 7385 24.63 -8.615 9.007 2006-08-23T11:44:17.211739392 INFO 2025-06-26 11:47:13,351 calibrate.py _nudge_pos():1806 [1] 1149: 0.090 -0.0007147 -0.0004364 9094 30.31 -3.493 -2.668 2006-08-23T12:15:17.204321024 INFO 2025-06-26 11:47:13,786 calibrate.py _nudge_pos():1806 [1] 1187: 0.080 -0.0005080 -0.0002744 7943 26.48 -2.843 -1.920 2006-08-23T12:42:23.212931840 INFO 2025-06-26 11:47:14,273 calibrate.py _nudge_pos():1806 [1] 1230: 0.100 -0.0005658 -0.0002549 8007 26.70 -3.141 -1.769 2006-08-23T13:09:47.210310144 INFO 2025-06-26 11:47:14,453 calibrate.py _nudge_pos():1862 [1] 1225: - - - 2 0.00 - - INFO 2025-06-26 11:47:14,453 calibrate.py _nudge_pos():1868 [1] Points in final series = 349070 WARNING 2025-06-26 11:47:26,548 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:48:01,499 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 1 of 279244 INFO 2025-06-26 11:48:03,685 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:48:23,594 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:48:25,735 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:48:25,739 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.234.02/ctd1.nc INFO 2025-06-26 11:48:25,741 calibrate.py _range_qc_combined_nc():898 [1] Setting 51 ctd1_salinity values to NaN INFO 2025-06-26 11:48:25,742 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:48:25,742 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:48:41,220 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:48:43,435 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:48:43,439 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.234.02/ctd2.nc INFO 2025-06-26 11:48:43,441 calibrate.py _range_qc_combined_nc():898 [1] Setting 55 ctd2_salinity values to NaN INFO 2025-06-26 11:48:43,441 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:48:43,441 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:48:43,539 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:48:46,764 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 4133587 4133588 4133589] INFO 2025-06-26 11:48:47,514 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: 0 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:48:47,521 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 11:48:47,525 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.234.02 ERROR 2025-06-26 11:48:47,525 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.234.02 INFO 2025-06-26 11:48:47,859 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_cal.nc INFO 2025-06-26 11:49:09,607 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 11:49:09,613 process.py align():251 [1] Alignment steps for 2006.234.02 INFO 2025-06-26 11:49:09,657 align.py process_cal():139 [1] Processing dorado_2006.234.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.234.02 INFO 2025-06-26 11:49:09,745 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:49:09,754 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:49:09,969 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:49:09,981 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:49:10,195 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:49:10,207 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:49:10,337 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:49:10,338 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:49:10,422 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:49:10,434 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:49:10,640 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:49:10,651 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:10,832 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:49:10,841 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,025 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:49:11,035 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,219 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:11,229 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,415 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:11,425 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,609 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:11,619 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,801 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:11,811 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:11,992 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,002 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:12,184 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,194 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:12,378 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,388 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:12,575 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,585 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:12,766 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,776 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:12,960 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:12,970 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:13,155 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:13,165 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:13,349 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:13,359 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:13,541 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:13,554 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:13,738 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:13,749 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:13,932 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:13,941 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:14,123 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:14,133 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:14,314 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.234.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:49:14,323 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:49:14,556 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:49:14,708 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:49:14,856 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:49:15,015 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:49:15,179 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 11:49:15,318 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_align.nc INFO 2025-06-26 11:49:15,480 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 11:49:15,482 process.py resample():273 [1] Resampling steps for 2006.234.02 INFO 2025-06-26 11:49:15,482 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:49:15,518 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_align.nc mission netCDF file INFO 2025-06-26 11:49:15,527 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_align.nc mission netCDF file INFO 2025-06-26 11:49:15,529 resample.py get_mission_start_end():1145 [1] navigation: 2006-08-22T17:46:01.183720704 to 2006-08-23T13:10:02.609255424 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:49:15,532 resample.py get_mission_start_end():1145 [1] hs2 : 2006-08-22T17:45:44.434868224 to 2006-08-23T13:10:02.419268352 (0 days 00:00:00.189987072 before mission_end) INFO 2025-06-26 11:49:15,535 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-08-22T17:46:08.223238400 to 2006-08-23T13:10:02.569257984 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 11:49:15,537 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-08-22T17:46:08.203239936 to 2006-08-23T13:10:02.569257984 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 11:49:15,539 resample.py get_mission_start_end():1145 [1] isus : 2006-08-22T17:47:04.669371648 to 2006-08-23T13:10:01.909303296 (0 days 00:00:00.699952128 before mission_end) INFO 2025-06-26 11:49:15,541 resample.py get_mission_start_end():1145 [1] biolume : 2006-08-22T17:45:39.875146240 to 2006-08-23T13:10:01.189318400 (0 days 00:00:01.419937024 before mission_end) INFO 2025-06-26 11:49:15,543 resample.py get_mission_start_end():1145 [1] tailcone : 2006-08-22T17:45:40.545134592 to 2006-08-23T13:10:02.349273088 (0 days 00:00:00.259982336 before mission_end) INFO 2025-06-26 11:49:15,544 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_align.nc mission netCDF file INFO 2025-06-26 11:49:15,545 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,255 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,368 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,479 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,588 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,682 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,775 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,865 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:16,956 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,044 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,129 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,216 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,302 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,387 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,474 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,561 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,657 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,759 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,848 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:17,937 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,026 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,117 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,208 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,242 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,273 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,301 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,334 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,438 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:49:18,938 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_1S.nc INFO 2025-06-26 11:49:21,792 create_products.py gulper_odv():401 [1] No gulper times found for 2006.234.02 INFO 2025-06-26 11:49:21,792 process.py archive():337 [1] Archiving steps for 2006.234.02 INFO 2025-06-26 11:49:21,792 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02, BASE_PATH = /data/auv_data INFO 2025-06-26 11:49:21,793 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:49:21,795 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.234.02_1S.nc INFO 2025-06-26 11:49:21,847 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:49:21,848 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.234.02_cal.nc INFO 2025-06-26 11:49:22,104 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:49:22,105 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.234.02_align.nc INFO 2025-06-26 11:49:22,345 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:49:22,414 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,480 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,485 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,530 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,748 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,759 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,853 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:22,910 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:23,090 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006234/2006.234.02 done. INFO 2025-06-26 11:49:23,090 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:49:23,091 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.234.02/dorado_2006.234.02_processing.log /Volumes/AUVCTD/surveys/2006/netcdf