INFO 2025-06-26 11:31:02,366 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 11:31:02,367 process.py process_mission():434 [1] dorado_info[mission]["comment"] = BIOLUME mission - as part of MB06 - Finished up on LOCO line, Missed some Iridium points (???)) - ctdToUse = ctd1 INFO 2025-06-26 11:31:02,367 process.py process_mission():449 [1] Processing BIOLUME mission 2006.214.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:31:02,367 process.py download_process():165 [1] Download and processing steps for 2006.214.01 INFO 2025-06-26 11:31:02,367 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006214/2006.214.01 INFO 2025-06-26 11:31:02,367 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006214/2006.214.01 to /data/auv_data/dorado/missionlogs/2006.214.01 INFO 2025-06-26 11:31:09,358 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.214.01 INFO 2025-06-26 11:31:09,358 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/ctdDriver.log (15169747 bytes) INFO 2025-06-26 11:31:10,435 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.214.01/ctdDriver.log: [ 2556 16293 31972 61446 91256 152348] INFO 2025-06-26 11:31:10,481 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/ctdDriver2.log (15168685 bytes) INFO 2025-06-26 11:31:11,571 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.214.01/ctdDriver2.log: [ 7512 14573 23793 46286 67416 88877 110204 133883 137090 146770 164734] INFO 2025-06-26 11:31:11,629 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/gps.log (76820 bytes) INFO 2025-06-26 11:31:11,645 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/hydroscatlog.log (10346774 bytes) INFO 2025-06-26 11:31:12,905 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.214.01/hydroscatlog.log: [ 126 1676 5117 32194 38098 45213 67506 124202 124662 142432 143782 158891] INFO 2025-06-26 11:31:12,938 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/navigation.log (50861902 bytes) INFO 2025-06-26 11:31:16,745 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/isuslog.log (1036949 bytes) INFO 2025-06-26 11:31:16,849 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/parosci.log (22123478 bytes) INFO 2025-06-26 11:31:18,682 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.214.01/parosci.log: [ 14 16 63 1381 2747 2966 4112 7144 8837 9232 9257 11085 13147 13148 13703 13840 20752 20753 30650 35027 49659 52476 73312 77179 123877 161521 168524 180897 192359 204173 213766 221769 234632 251941 270086 295633 307170 309780 324298 339323 383013 395676 400557 405104 415623 424723] INFO 2025-06-26 11:31:18,751 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/tailCone.log (10342507 bytes) INFO 2025-06-26 11:31:20,060 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.214.01/biolume.log (11735852 bytes) INFO 2025-06-26 11:31:21,201 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:31:21,808 logs2netcdfs.py download_process_logs():807 [1] Time to process: 12.45 seconds WARNING 2025-06-26 11:31:21,809 process.py download_process():196 [1] No lopc.bin file for 2006.214.01 INFO 2025-06-26 11:31:21,809 process.py calibrate():227 [1] Calibration steps for 2006.214.01 INFO 2025-06-26 11:31:22,125 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 11:31:22,127 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:31:22,865 calibrate.py _nudge_pos():1806 [1] 91: 0.020 -0.0009197 0.0001238 1794 6.00 -22.808 3.826 2006-08-02T03:30:35.507079936 INFO 2025-06-26 11:31:23,319 calibrate.py _nudge_pos():1806 [1] 137: 0.010 -0.0019104 -0.0016287 5770 19.25 -14.756 -15.678 2006-08-02T03:50:35.514873856 INFO 2025-06-26 11:31:23,782 calibrate.py _nudge_pos():1806 [1] 183: 0.010 -0.0039093 -0.0028964 9884 32.95 -17.636 -16.288 2006-08-02T04:24:17.516357120 INFO 2025-06-26 11:31:24,186 calibrate.py _nudge_pos():1806 [1] 223: 0.010 -0.0043242 -0.0029140 9823 32.75 -19.623 -16.489 2006-08-02T04:57:41.509074176 INFO 2025-06-26 11:31:24,609 calibrate.py _nudge_pos():1806 [1] 265: 0.010 -0.0049157 -0.0033090 10864 36.21 -20.165 -16.932 2006-08-02T05:34:35.507405056 INFO 2025-06-26 11:31:24,677 calibrate.py _nudge_pos():1806 [1] 271: 0.010 -0.0000032 -0.0000180 35 0.11 -4.189 -29.420 2006-08-02T05:34:47.506583040 INFO 2025-06-26 11:31:25,043 calibrate.py _nudge_pos():1806 [1] 306: 0.030 -0.0049620 -0.0031804 9128 30.43 -24.217 -19.367 2006-08-02T06:05:47.509164032 INFO 2025-06-26 11:31:25,367 calibrate.py _nudge_pos():1806 [1] 338: 0.030 -0.0039804 -0.0016216 6834 22.78 -25.944 -13.190 2006-08-02T06:29:05.513394176 INFO 2025-06-26 11:31:25,805 calibrate.py _nudge_pos():1806 [1] 381: 0.010 -0.0019079 -0.0000887 3628 12.10 -23.416 -1.359 2006-08-02T06:41:53.510782720 INFO 2025-06-26 11:31:25,898 calibrate.py _nudge_pos():1806 [1] 390: 0.020 0.0000095 -0.0000002 20 0.06 22.270 -0.439 2006-08-02T06:42:05.509960960 INFO 2025-06-26 11:31:26,195 calibrate.py _nudge_pos():1806 [1] 418: 0.010 -0.0033407 0.0027293 8233 27.45 -18.065 18.426 2006-08-02T07:09:59.515283712 INFO 2025-06-26 11:31:26,217 calibrate.py _nudge_pos():1806 [1] 420: 0.030 -0.0000310 0.0000318 80 0.26 -17.484 22.399 2006-08-02T07:10:16.514119168 INFO 2025-06-26 11:31:26,676 calibrate.py _nudge_pos():1806 [1] 465: 0.070 -0.0021271 0.0019194 6895 22.98 -13.735 15.478 2006-08-02T07:33:59.506637312 INFO 2025-06-26 11:31:27,109 calibrate.py _nudge_pos():1806 [1] 507: 0.040 -0.0031317 0.0031765 9663 32.21 -14.420 18.272 2006-08-02T08:06:53.511408896 INFO 2025-06-26 11:31:27,573 calibrate.py _nudge_pos():1806 [1] 552: 0.030 -0.0033609 0.0034331 10609 35.36 -14.092 17.989 2006-08-02T08:42:59.513027328 INFO 2025-06-26 11:31:27,964 calibrate.py _nudge_pos():1806 [1] 589: 0.030 -0.0039590 0.0020405 8909 29.70 -19.760 12.732 2006-08-02T09:13:17.508486144 INFO 2025-06-26 11:31:28,385 calibrate.py _nudge_pos():1806 [1] 629: 0.030 -0.0048317 0.0021797 10124 33.75 -21.214 11.968 2006-08-02T09:47:41.507092736 INFO 2025-06-26 11:31:28,825 calibrate.py _nudge_pos():1806 [1] 672: 0.040 -0.0031625 0.0016324 7379 24.60 -19.046 12.298 2006-08-02T10:12:59.523101696 INFO 2025-06-26 11:31:29,261 calibrate.py _nudge_pos():1806 [1] 713: 0.050 -0.0006327 0.0006143 2740 9.13 -10.265 12.467 2006-08-02T10:22:47.512821504 INFO 2025-06-26 11:31:29,687 calibrate.py _nudge_pos():1806 [1] 753: 0.060 -0.0000184 0.0009174 7484 24.95 -0.109 6.814 2006-08-02T10:48:23.507598592 INFO 2025-06-26 11:31:30,165 calibrate.py _nudge_pos():1806 [1] 798: 0.080 -0.0000389 0.0008657 7909 26.36 -0.219 6.085 2006-08-02T11:15:29.516209408 INFO 2025-06-26 11:31:30,658 calibrate.py _nudge_pos():1806 [1] 846: 0.110 -0.0002671 -0.0000868 17852 59.51 -0.665 -0.270 2006-08-02T12:15:47.508359936 INFO 2025-06-26 11:31:31,155 calibrate.py _nudge_pos():1806 [1] 893: 0.060 -0.0007033 -0.0004475 15758 52.53 -1.984 -1.579 2006-08-02T13:09:05.509281792 INFO 2025-06-26 11:31:31,633 calibrate.py _nudge_pos():1806 [1] 939: 0.060 -0.0017583 -0.0008307 18373 61.25 -4.256 -2.513 2006-08-02T14:11:05.514444032 INFO 2025-06-26 11:31:32,071 calibrate.py _nudge_pos():1806 [1] 980: 0.090 -0.0010448 -0.0006665 15398 51.33 -3.019 -2.406 2006-08-02T15:03:05.510709760 INFO 2025-06-26 11:31:32,105 calibrate.py _nudge_pos():1806 [1] 983: 0.080 0.0000212 0.0000195 105 0.35 9.086 10.416 2006-08-02T15:03:28.509134080 INFO 2025-06-26 11:31:32,507 calibrate.py _nudge_pos():1806 [1] 1021: 0.070 -0.0004552 -0.0001728 5190 17.30 -3.903 -1.851 2006-08-02T15:21:23.515491328 INFO 2025-06-26 11:31:32,870 calibrate.py _nudge_pos():1862 [1] 1034: - - - 3 0.01 - - INFO 2025-06-26 11:31:32,871 calibrate.py _nudge_pos():1868 [1] Points in final series = 215444 WARNING 2025-06-26 11:31:40,315 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:32:03,141 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:32:15,528 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 29 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:32:16,808 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 29 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:32:16,812 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.214.01/ctd1.nc INFO 2025-06-26 11:32:16,813 calibrate.py _range_qc_combined_nc():898 [1] Setting 8 ctd1_salinity values to NaN INFO 2025-06-26 11:32:16,814 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 11:32:16,814 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:32:26,283 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 30 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:32:27,634 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 30 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:32:27,638 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.214.01/ctd2.nc INFO 2025-06-26 11:32:27,639 calibrate.py _range_qc_combined_nc():898 [1] Setting 8 ctd2_salinity values to NaN INFO 2025-06-26 11:32:27,640 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 11:32:27,640 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:32:27,705 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:32:29,788 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 120 360 480 481 482 483 484 485 486 487 488 1860 1861 1862 1863 1864 1865 1866 2220 2221 2222 5640 5641 5642 5643 5644 5645 5646 5647 5648 5649 7980 7981 7982 7983 7984 7985 7986 7987 7988 14220 14221 14222 14223 14224 14225 14226 14227 14228 14229 14230 14231 14232 16320 16321 16322 16323 16324 16325 16326 16327 16328 16329 16330 16331 20640 20641 20642 20643 20644 20645 20646 20647 20648 20649 25500 25501 25502 25503 25504 25505 25506 30300 35280 39960 39961 39962 39963 39964 41100 41101 41102 41103 41104 41105 41106 41107 41108 41109 44520 44760 45900 46080 46260 48600 50700 50880 52020 52021 52022 52140 52141 52142 52143 52144 52145 52146 52147 52148 52149 52150 53400 56220 57780 58140 77100 77101 77102 77103 77104 77105 77106 77107 77108 77109 79800 80460 80461 80462 80463 115320 115321 115322 115323 115324 115325 115326 115327 115328 156240 156241 156242 156243 157800 157801 157802 157803 162420 164580 167880 170880 199740 199741 199742 199743 199744 199745 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979801 979802 979803 979804 979805 979806 979807 979808 1032300 1033740 1033741 1033742 1033743 1033744 1033745 1122180 1189680 1217880 1217881 1217882 1258620 1258621 1258622 1258623 1266180 1266181 1266182 1266183 1266184 1266185 1266186 1266187 1266188 1266189 1266190 1266191 1275600 1277700 1277880 1291080 1305840 1335480 1335481 1335482 1335483 1335484 1335485 1335486 1335487 1335488 1335489 1335490 1335491 1335492 1335493 1339560 1371060 1371061 1371062 1371063 1371064 1371065 1371066 1371067 1389120 1389540 1413840 1419120 1419480 1422540 1425900 1457100 1503720 1504080 1504260 1504440 1504980 1540080 1542600 1542601 1542602 1542603 1542604 1542605 1542606 1542607 1542608 1542609 1641360 1655460 1655461 1655462 1655463 1655464 1655465 1655466 1655467 1655468 1655469 1705800 1706340 1720680 1721400 1739340 1739341 1739342 1739343 1739344 1739345 1739346 1739347 1739348 1739349 1739350 1739351 1834500 1914540 1914541 1914542 1914543 1914544 1914545 1914546 1914547 1914548 1942020 1942200 1942380 1954800 1955160 1959120 1961760 1962120 1988700 1988880 1989060 1989240 1991940 1992120 1992300 1992840 2026680 2026681 2026682 2026683 2026684 2026685 2026686 2026687 2026688 2067180 2067181 2067182 2067183 2067184 2067185 2067186 2067187 2067188 2067189 2067190 2067191 2071320 2071321 2071322 2071323 2071324 2071325 2080080 2089020 2158260 2158261 2158262 2158263 2158264 2158265 2158266 2191320 2223960 2238300 2270700 2270701 2270702 2270703 2270704 2270705 2270706 2270707 2270708 2270709 2305980 2309580 2355360 2402100 2402101 2402102 2402103 2411640 2411641 2411642 2411643 2423100 2455080 2455081 2455082 2455083 2455084 2455085 2455086 2455087 2458560 2473740 2473741 2473742 2473743 2473744 2473745 2495640 2495641 2495642 2495643 2495644 2495645 2495646 2495647 2518860 2519220 2527320 2572440 2572800] INFO 2025-06-26 11:32:30,183 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:32:30,189 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 11:32:30,190 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.214.01 ERROR 2025-06-26 11:32:30,190 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.214.01 INFO 2025-06-26 11:32:30,354 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_cal.nc INFO 2025-06-26 11:32:43,753 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 11:32:43,759 process.py align():251 [1] Alignment steps for 2006.214.01 INFO 2025-06-26 11:32:43,796 align.py process_cal():139 [1] Processing dorado_2006.214.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.214.01 INFO 2025-06-26 11:32:43,850 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:32:43,857 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:32:43,991 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:32:43,999 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:32:44,132 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:32:44,140 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:32:44,221 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:32:44,222 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:32:44,274 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:32:44,282 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:32:44,410 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:32:44,418 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:44,533 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:32:44,541 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:44,654 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:32:44,661 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:44,778 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:44,785 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:44,904 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:44,911 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,028 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,035 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,153 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,160 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,274 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,281 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,396 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,403 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,520 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,528 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,647 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,655 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,770 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,778 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:45,894 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:45,900 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,019 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,026 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,142 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,149 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,263 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,271 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,389 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,397 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,514 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,520 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,640 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,648 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,764 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.214.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:32:46,771 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:32:46,921 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:32:47,020 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:32:47,117 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:32:47,217 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:32:47,324 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:32:47,417 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_align.nc INFO 2025-06-26 11:32:47,540 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 11:32:47,542 process.py resample():273 [1] Resampling steps for 2006.214.01 INFO 2025-06-26 11:32:47,543 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:32:47,574 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_align.nc mission netCDF file INFO 2025-06-26 11:32:47,581 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_align.nc mission netCDF file INFO 2025-06-26 11:32:47,583 resample.py get_mission_start_end():1145 [1] navigation: 2006-08-02T03:23:27.296414464 to 2006-08-02T15:21:57.113189632 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 11:32:47,586 resample.py get_mission_start_end():1145 [1] hs2 : 2006-08-02T03:23:10.497564928 to 2006-08-02T15:21:57.143187456 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 11:32:47,588 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-08-02T03:23:36.715769088 to 2006-08-02T15:21:57.233181440 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:32:47,590 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-08-02T03:23:37.105742336 to 2006-08-02T15:21:57.153186816 (0 days 00:00:00.079994624 before mission_end) INFO 2025-06-26 11:32:47,592 resample.py get_mission_start_end():1145 [1] isus : 2006-08-02T03:24:29.252169984 to 2006-08-02T15:21:56.543228672 (0 days 00:00:00.689952768 before mission_end) INFO 2025-06-26 11:32:47,594 resample.py get_mission_start_end():1145 [1] biolume : 2006-08-02T03:23:05.797852672 to 2006-08-02T15:21:55.923236864 (0 days 00:00:01.309944576 before mission_end) INFO 2025-06-26 11:32:47,596 resample.py get_mission_start_end():1145 [1] tailcone : 2006-08-02T03:23:05.547904256 to 2006-08-02T15:21:57.123188992 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 11:32:47,597 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_align.nc mission netCDF file INFO 2025-06-26 11:32:47,597 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,053 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,127 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,199 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,271 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,333 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,396 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,460 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,521 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,579 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,638 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,695 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,753 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,810 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,868 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,925 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:48,982 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,044 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,102 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,161 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,219 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,277 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,335 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,358 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,380 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,400 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,423 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,492 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:32:49,832 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_1S.nc INFO 2025-06-26 11:32:51,661 create_products.py gulper_odv():401 [1] No gulper times found for 2006.214.01 INFO 2025-06-26 11:32:51,661 process.py archive():337 [1] Archiving steps for 2006.214.01 INFO 2025-06-26 11:32:51,661 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01, BASE_PATH = /data/auv_data INFO 2025-06-26 11:32:51,663 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:32:51,664 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.214.01_1S.nc INFO 2025-06-26 11:32:51,697 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:32:51,698 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.214.01_cal.nc INFO 2025-06-26 11:32:51,876 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:32:51,878 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.214.01_align.nc INFO 2025-06-26 11:32:52,050 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:32:52,098 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,141 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,146 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,179 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,327 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,336 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,407 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,445 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,562 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006214/2006.214.01 done. INFO 2025-06-26 11:32:52,562 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:32:52,562 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.214.01/dorado_2006.214.01_processing.log /Volumes/AUVCTD/surveys/2006/netcdf