INFO 2025-06-26 15:45:20,995 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 15:45:20,995 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Kanna missions in Monterey Bay rhodamine sensor replaces CDOM - around time of Board meeting - ctdToUse = ctd1 INFO 2025-06-26 15:45:20,995 process.py process_mission():449 [1] Processing AUVCTD mission 2010.180.05 by user docker_user on host eae60d30a712 INFO 2025-06-26 15:45:20,996 process.py download_process():165 [1] Download and processing steps for 2010.180.05 INFO 2025-06-26 15:45:20,996 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2010/2010180/2010.180.05 INFO 2025-06-26 15:45:20,996 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2010/2010180/2010.180.05 to /data/auv_data/dorado/missionlogs/2010.180.05 INFO 2025-06-26 15:45:24,638 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2010.180.05 INFO 2025-06-26 15:45:24,638 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/ctdDriver.log (7423787 bytes) INFO 2025-06-26 15:45:25,162 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/ctdDriver2.log (7423775 bytes) INFO 2025-06-26 15:45:25,707 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/gps.log (256244 bytes) INFO 2025-06-26 15:45:25,741 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/hydroscatlog.log (6497674 bytes) INFO 2025-06-26 15:45:26,432 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/navigation.log (22775778 bytes) INFO 2025-06-26 15:45:28,058 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/isuslog.log (482773 bytes) INFO 2025-06-26 15:45:28,107 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2010.180.05/isuslog.log: [ 1 2 3 4 5 7 8 9 10 11 12 13 14 15 16 17 18] INFO 2025-06-26 15:45:28,109 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/parosci.log (7570934 bytes) INFO 2025-06-26 15:45:28,763 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/tailCone.log (4638715 bytes) INFO 2025-06-26 15:45:29,343 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.71 seconds INFO 2025-06-26 15:45:29,344 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2010.180.05/lopc.bin (93482637 bytes) INFO 2025-06-26 15:45:29,344 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 15:45:29 2025 INFO 2025-06-26 15:45:29,344 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2010.180.05/parosci.nc INFO 2025-06-26 15:45:29,344 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 15:45:29,344 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2010.180.05/parosci.nc INFO 2025-06-26 15:45:29,347 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1277827072.5, sensor_off_time = 1277846421.7 INFO 2025-06-26 15:45:29,348 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 19349 seconds. Expecting to read 38698 L frames from the lopc.bin file. INFO 2025-06-26 15:45:29,348 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 38698 records from the lopc.bin file. INFO 2025-06-26 15:45:29,572 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2010-06-29 15:57:52 Z and endTime = 2010-06-29 21:20:21 Z with 38698 records expected to be read from lopc.bin INFO 2025-06-26 15:45:29,572 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2010.180.05/lopc.bin INFO 2025-06-26 15:45:29,572 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2010.180.05/lopc.nc INFO 2025-06-26 15:45:29,573 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2010.180.05/lopc.nc INFO 2025-06-26 15:45:29,574 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2010.180.05 INFO 2025-06-26 15:45:29,574 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 WARNING 2025-06-26 15:45:29,577 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = A053359 WARNING 2025-06-26 15:45:29,577 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = ERROR 2025-06-26 15:45:29,587 process.py download_process():223 [1] UnexpectedAreaOfCode: Encountered unexpected area of code - lopc.nc file is probably corrupt INFO 2025-06-26 15:45:29,588 process.py calibrate():227 [1] Calibration steps for 2010.180.05 INFO 2025-06-26 15:45:29,752 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 15:45:29,754 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 15:45:31,147 calibrate.py _nudge_pos():1806 [1] 187: 0.100 0.0021578 -0.0015169 7690 25.63 12.477 -10.967 2010-06-29T16:26:34.532006144 INFO 2025-06-26 15:45:31,806 calibrate.py _nudge_pos():1806 [1] 257: 0.110 0.0007753 -0.0018429 6555 21.85 5.260 -15.631 2010-06-29T16:49:34.527469824 INFO 2025-06-26 15:45:32,642 calibrate.py _nudge_pos():1806 [1] 346: 0.040 -0.0000345 -0.0015214 5501 18.33 -0.279 -15.377 2010-06-29T17:09:22.736071936 INFO 2025-06-26 15:45:33,527 calibrate.py _nudge_pos():1806 [1] 439: 0.100 -0.0000184 0.0000377 275 0.91 -2.986 7.654 2010-06-29T17:11:49.536015616 INFO 2025-06-26 15:45:35,774 calibrate.py _nudge_pos():1806 [1] 675: 0.110 0.0004309 -0.0014889 7060 23.53 2.714 -11.725 2010-06-29T17:39:16.533188352 INFO 2025-06-26 15:45:36,512 calibrate.py _nudge_pos():1806 [1] 752: 0.110 0.0006826 -0.0027736 7870 26.23 3.857 -19.594 2010-06-29T18:06:46.530155776 INFO 2025-06-26 15:45:37,227 calibrate.py _nudge_pos():1806 [1] 827: 0.110 -0.0019345 -0.0016275 5180 17.26 -16.606 -17.469 2010-06-29T18:25:16.534115584 INFO 2025-06-26 15:45:38,791 calibrate.py _nudge_pos():1806 [1] 990: 0.120 -0.0000171 -0.0000355 315 1.05 -2.419 -6.280 2010-06-29T18:29:01.528702208 INFO 2025-06-26 15:45:45,780 calibrate.py _nudge_pos():1806 [1] 1705: 0.120 -0.0019160 -0.0031736 8475 28.25 -10.053 -20.819 2010-06-29T19:09:10.533673984 INFO 2025-06-26 15:45:45,862 calibrate.py _nudge_pos():1806 [1] 1713: 0.120 -0.0000126 0.0000040 15 0.05 -39.976 16.001 2010-06-29T19:09:20.532988928 INFO 2025-06-26 15:45:46,535 calibrate.py _nudge_pos():1806 [1] 1783: 0.120 -0.0000282 -0.0026393 6775 22.58 -0.185 -21.659 2010-06-29T19:33:04.535438336 INFO 2025-06-26 15:45:47,310 calibrate.py _nudge_pos():1806 [1] 1863: 0.130 -0.0002875 -0.0025051 6085 20.28 -2.101 -22.890 2010-06-29T19:54:40.526656768 INFO 2025-06-26 15:45:48,010 calibrate.py _nudge_pos():1806 [1] 1935: 0.130 0.0002553 -0.0003073 1505 5.01 7.547 -11.359 2010-06-29T20:00:52.531172864 INFO 2025-06-26 15:45:56,985 calibrate.py _nudge_pos():1806 [1] 2851: 0.130 0.0000153 -0.0000643 275 0.91 2.478 -13.051 2010-06-29T20:17:02.534723072 INFO 2025-06-26 15:45:58,497 calibrate.py _nudge_pos():1806 [1] 3005: 0.130 -0.0008050 -0.0022809 6745 22.48 -5.307 -18.801 2010-06-29T20:42:04.531828992 INFO 2025-06-26 15:45:59,297 calibrate.py _nudge_pos():1806 [1] 3087: 0.130 -0.0003508 -0.0029103 6645 22.15 -2.347 -24.350 2010-06-29T21:05:34.535237376 INFO 2025-06-26 15:45:59,912 calibrate.py _nudge_pos():1806 [1] 3150: 0.140 -0.0002442 -0.0003085 2090 6.96 -5.196 -8.210 2010-06-29T21:13:34.532355072 INFO 2025-06-26 15:46:00,170 calibrate.py _nudge_pos():1806 [1] 3175: 0.140 0.0000170 -0.0000184 60 0.20 12.831 -17.382 2010-06-29T21:14:10.529889024 INFO 2025-06-26 15:46:03,829 calibrate.py _nudge_pos():1862 [1] 3496: - - - 1 0.00 - - INFO 2025-06-26 15:46:03,829 calibrate.py _nudge_pos():1868 [1] Points in final series = 96494 WARNING 2025-06-26 15:46:03,954 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 15:46:04,657 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:46:05,395 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:46:05,982 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:46:05,984 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2010.180.05/ctd1.nc INFO 2025-06-26 15:46:05,985 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 15:46:05,986 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 15:46:05,986 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 15:46:06,700 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:46:07,291 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:46:07,293 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2010.180.05/ctd2.nc INFO 2025-06-26 15:46:07,295 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 15:46:07,295 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 15:46:07,295 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 15:46:08,001 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.180.05 ERROR 2025-06-26 15:46:08,002 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no time coordinate - likely an incomplete lopc.nc file in missionlogs/2010.180.05 ERROR 2025-06-26 15:46:08,002 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.180.05 INFO 2025-06-26 15:46:08,079 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_cal.nc INFO 2025-06-26 15:46:08,172 calibrate.py write_netcdf():3512 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, 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 15:46:08,178 process.py align():251 [1] Alignment steps for 2010.180.05 INFO 2025-06-26 15:46:08,207 align.py process_cal():139 [1] Processing dorado_2010.180.05_cal.nc from /data/auv_data/dorado/missionnetcdfs/2010.180.05 INFO 2025-06-26 15:46:08,239 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:46:08,243 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:46:08,311 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:46:08,316 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:46:08,382 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:46:08,387 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:46:08,427 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 15:46:08,427 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 15:46:08,452 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:46:08,457 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:46:08,524 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,529 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,597 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,602 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,660 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,664 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,721 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,725 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,783 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,788 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,844 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,848 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,906 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,911 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:08,966 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:08,971 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,030 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,034 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,091 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,096 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,154 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,159 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,216 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,221 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,279 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,284 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,340 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,344 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,402 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,407 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,464 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,468 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,527 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,532 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,590 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,595 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,658 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,663 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,723 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,727 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,787 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,792 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,851 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.180.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:46:09,855 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:46:09,924 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:46:09,972 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:46:10,022 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:46:10,073 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 15:46:10,120 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_align.nc INFO 2025-06-26 15:46:10,193 align.py write_netcdf():342 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, 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 15:46:10,195 process.py resample():273 [1] Resampling steps for 2010.180.05 INFO 2025-06-26 15:46:10,196 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 15:46:10,219 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_align.nc mission netCDF file INFO 2025-06-26 15:46:10,224 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_align.nc mission netCDF file INFO 2025-06-26 15:46:10,225 resample.py get_mission_start_end():1145 [1] navigation: 2010-06-29T15:58:42.076577024 to 2010-06-29T21:20:21.734459904 (0 days 00:00:00 before mission_end) INFO 2025-06-26 15:46:10,227 resample.py get_mission_start_end():1145 [1] hs2 : 2010-06-29T15:57:57.809609728 to 2010-06-29T21:20:21.514475008 (0 days 00:00:00.219984896 before mission_end) INFO 2025-06-26 15:46:10,229 resample.py get_mission_start_end():1145 [1] ctd1 : 2010-06-29T15:58:11.268687360 to 2010-06-29T21:20:21.604468736 (0 days 00:00:00.129991168 before mission_end) INFO 2025-06-26 15:46:10,231 resample.py get_mission_start_end():1145 [1] ctd2 : 2010-06-29T15:58:11.058702080 to 2010-06-29T21:20:21.624467456 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 15:46:10,232 resample.py get_mission_start_end():1145 [1] isus : 2010-06-29T15:58:51.345942016 to 2010-06-29T21:20:20.784524800 (0 days 00:00:00.949935104 before mission_end) INFO 2025-06-26 15:46:10,234 resample.py get_mission_start_end():1145 [1] tailcone : 2010-06-29T15:57:54.339847424 to 2010-06-29T21:20:21.544472832 (0 days 00:00:00.189987072 before mission_end) INFO 2025-06-26 15:46:10,235 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_align.nc mission netCDF file INFO 2025-06-26 15:46:10,235 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,454 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,492 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,529 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,565 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,598 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,629 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,661 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,692 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,723 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,754 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,785 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,818 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,847 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,876 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,904 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,932 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,961 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:10,991 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,023 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,053 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,083 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,112 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,142 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,171 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,188 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,204 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,218 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,256 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 15:46:11,461 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_1S.nc INFO 2025-06-26 15:46:13,572 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 15:46:15,896 create_products.py gulper_odv():522 [1] Wrote 2 Gulper data lines to /data/auv_data/dorado/missionodvs/2010.180.05/dorado_2010.180.05_1S_Gulper.txt INFO 2025-06-26 15:46:15,896 process.py archive():337 [1] Archiving steps for 2010.180.05 INFO 2025-06-26 15:46:15,897 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05, BASE_PATH = /data/auv_data INFO 2025-06-26 15:46:15,897 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05 files to /Volumes/AUVCTD/surveys/2010/netcdf INFO 2025-06-26 15:46:15,898 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.180.05_1S.nc INFO 2025-06-26 15:46:15,916 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_1S.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:46:15,917 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.180.05_cal.nc INFO 2025-06-26 15:46:16,185 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_cal.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:46:16,186 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.180.05_align.nc INFO 2025-06-26 15:46:16,264 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_align.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:46:16,287 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,310 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,315 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/gps.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,335 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,391 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,398 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,421 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,441 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,445 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010180/2010.180.05 done. INFO 2025-06-26 15:46:16,445 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 15:46:16,446 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2010/odv/dorado_2010.180.05_1S_Gulper.txt INFO 2025-06-26 15:46:16,451 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2010.180.05/dorado_2010.180.05_1S_Gulper.txt /Volumes/AUVCTD/surveys/2010/odv done. INFO 2025-06-26 15:46:16,451 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.180.05/dorado_2010.180.05_processing.log /Volumes/AUVCTD/surveys/2010/netcdf