INFO 2025-06-26 14:54:56,188 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 14:54:56,188 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Ryan - around ESP - ctdToUse = ctd2 INFO 2025-06-26 14:54:56,188 process.py process_mission():449 [1] Processing AUVCTD mission 2009.153.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 14:54:56,188 process.py download_process():165 [1] Download and processing steps for 2009.153.00 INFO 2025-06-26 14:54:56,188 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2009/2009153/2009.153.00 INFO 2025-06-26 14:54:56,188 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2009/2009153/2009.153.00 to /data/auv_data/dorado/missionlogs/2009.153.00 INFO 2025-06-26 14:54:56,773 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2009.153.00 INFO 2025-06-26 14:54:56,773 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/ctdDriver.log (63756 bytes) INFO 2025-06-26 14:54:56,786 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/ctdDriver2.log (63573 bytes) INFO 2025-06-26 14:54:56,796 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/gps.log (10076 bytes) INFO 2025-06-26 14:54:56,804 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/hydroscatlog.log (64618 bytes) INFO 2025-06-26 14:54:56,819 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/navigation.log (197658 bytes) INFO 2025-06-26 14:54:56,845 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/isuslog.log (2997 bytes) INFO 2025-06-26 14:54:56,849 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/parosci.log (81254 bytes) INFO 2025-06-26 14:54:56,861 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/tailCone.log (11371 bytes) INFO 2025-06-26 14:54:56,868 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/biolume.log (56988 bytes) INFO 2025-06-26 14:54:56,876 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 14:54:56,881 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.11 seconds INFO 2025-06-26 14:54:56,881 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2009.153.00/lopc.bin (678831 bytes) INFO 2025-06-26 14:54:56,882 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 14:54:56 2025 INFO 2025-06-26 14:54:56,882 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2009.153.00/parosci.nc INFO 2025-06-26 14:54:56,882 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:54:56,882 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2009.153.00/parosci.nc INFO 2025-06-26 14:54:56,883 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1243960152.0, sensor_off_time = 1243960349.7 INFO 2025-06-26 14:54:56,883 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 197 seconds. Expecting to read 394 L frames from the lopc.bin file. INFO 2025-06-26 14:54:56,883 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 394 records from the lopc.bin file. INFO 2025-06-26 14:54:56,886 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2009-06-02 16:29:11 Z and endTime = 2009-06-02 16:32:29 Z with 394 records expected to be read from lopc.bin INFO 2025-06-26 14:54:56,886 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2009.153.00/lopc.bin INFO 2025-06-26 14:54:56,886 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2009.153.00/lopc.nc INFO 2025-06-26 14:54:56,886 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2009.153.00/lopc.nc INFO 2025-06-26 14:54:56,887 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2009.153.00 INFO 2025-06-26 14:54:56,887 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 INFO 2025-06-26 14:54:56,953 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 14:54:56,953 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 14:54:56,953 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ ERROR 2025-06-26 14:54:57,225 process.py download_process():223 [1] UnexpectedAreaOfCode: Encountered unexpected area of code - lopc.nc file is probably corrupt INFO 2025-06-26 14:54:57,225 process.py calibrate():227 [1] Calibration steps for 2009.153.00 INFO 2025-06-26 14:54:57,291 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 14:54:57,294 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 14:54:58,039 calibrate.py _nudge_pos():1806 [1] 105: 0.180 0.0000057 0.0000077 245 0.81 1.044 1.757 2009-06-02T16:31:42.990461440 INFO 2025-06-26 14:54:58,076 calibrate.py _nudge_pos():1806 [1] 109: 0.180 0.0000065 0.0000007 125 0.41 2.315 0.301 2009-06-02T16:32:10.998542848 INFO 2025-06-26 14:54:58,252 calibrate.py _nudge_pos():1862 [1] 94: - - - 3 0.01 - - INFO 2025-06-26 14:54:58,253 calibrate.py _nudge_pos():1868 [1] Points in final series = 828 WARNING 2025-06-26 14:54:58,258 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 14:54:58,280 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 8 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:54:58,308 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:54:58,316 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:54:58,317 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2009.153.00/ctd1.nc INFO 2025-06-26 14:54:58,319 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 14:54:58,319 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 14:54:58,319 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 14:54:58,340 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:54:58,348 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:54:58,350 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2009.153.00/ctd2.nc INFO 2025-06-26 14:54:58,351 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 14:54:58,351 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 14:54:58,351 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 14:54:58,357 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 14:54:58,366 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 2220 2221] INFO 2025-06-26 14:54:58,370 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 14:54:58,374 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 14:54:58,374 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no time coordinate - likely an incomplete lopc.nc file in missionlogs/2009.153.00 ERROR 2025-06-26 14:54:58,375 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2009.153.00 INFO 2025-06-26 14:54:58,378 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_cal.nc INFO 2025-06-26 14:54:58,416 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_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 14:54:58,420 process.py align():251 [1] Alignment steps for 2009.153.00 INFO 2025-06-26 14:54:58,439 align.py process_cal():139 [1] Processing dorado_2009.153.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2009.153.00 INFO 2025-06-26 14:54:58,444 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:54:58,445 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:54:58,457 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:54:58,458 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:54:58,466 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:54:58,468 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:54:58,472 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 14:54:58,472 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 14:54:58,476 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:54:58,477 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:54:58,485 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,487 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,495 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,497 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,505 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,507 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,515 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,517 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,526 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,527 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,536 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,537 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,546 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,548 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,556 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,558 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,567 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,569 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,577 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,579 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,587 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,589 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,598 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,599 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,608 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,609 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,618 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,620 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,629 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,631 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,640 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,642 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,651 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,653 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,662 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,664 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,673 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,675 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,684 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.153.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:54:58,685 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:54:58,697 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:54:58,709 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:54:58,722 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:54:58,734 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 14:54:58,747 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.16 INFO 2025-06-26 14:54:58,756 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_align.nc INFO 2025-06-26 14:54:58,796 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_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 14:54:58,798 process.py resample():273 [1] Resampling steps for 2009.153.00 INFO 2025-06-26 14:54:58,799 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 14:54:58,819 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_align.nc mission netCDF file INFO 2025-06-26 14:54:58,823 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_align.nc mission netCDF file INFO 2025-06-26 14:54:58,824 resample.py get_mission_start_end():1145 [1] navigation: 2009-06-02T16:29:44.058608896 to 2009-06-02T16:32:29.597268480 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 14:54:58,826 resample.py get_mission_start_end():1145 [1] hs2 : 2009-06-02T16:29:20.600215552 to 2009-06-02T16:32:29.537272576 (0 days 00:00:00.149989888 before mission_end) INFO 2025-06-26 14:54:58,827 resample.py get_mission_start_end():1145 [1] ctd1 : 2009-06-02T16:29:30.569532928 to 2009-06-02T16:32:29.557271296 (0 days 00:00:00.129991168 before mission_end) INFO 2025-06-26 14:54:58,828 resample.py get_mission_start_end():1145 [1] ctd2 : 2009-06-02T16:29:31.049499904 to 2009-06-02T16:32:29.527273472 (0 days 00:00:00.159988992 before mission_end) INFO 2025-06-26 14:54:58,830 resample.py get_mission_start_end():1145 [1] isus : 2009-06-02T16:30:32.685277696 to 2009-06-02T16:32:29.247292416 (0 days 00:00:00.439970048 before mission_end) INFO 2025-06-26 14:54:58,831 resample.py get_mission_start_end():1145 [1] biolume : 2009-06-02T16:29:10.810852096 to 2009-06-02T16:32:28.727293952 (0 days 00:00:00.959968512 before mission_end) INFO 2025-06-26 14:54:58,833 resample.py get_mission_start_end():1145 [1] tailcone : 2009-06-02T16:29:15.780546048 to 2009-06-02T16:32:29.687262464 (0 days 00:00:00 before mission_end) INFO 2025-06-26 14:54:58,833 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_align.nc mission netCDF file INFO 2025-06-26 14:54:58,834 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,862 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,870 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,878 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,887 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,895 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,903 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,911 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,919 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,926 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,933 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,940 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,947 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,953 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,960 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,967 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,974 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,982 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,990 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:58,998 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,006 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,014 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,022 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,030 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,038 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,046 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,055 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,063 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 14:54:59,156 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_1S.nc INFO 2025-06-26 14:55:00,166 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd2 INFO 2025-06-26 14:55:00,443 create_products.py gulper_odv():522 [1] Wrote 2 Gulper data lines to /data/auv_data/dorado/missionodvs/2009.153.00/dorado_2009.153.00_1S_Gulper.txt INFO 2025-06-26 14:55:00,443 process.py archive():337 [1] Archiving steps for 2009.153.00 INFO 2025-06-26 14:55:00,443 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00, BASE_PATH = /data/auv_data INFO 2025-06-26 14:55:00,443 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00 files to /Volumes/AUVCTD/surveys/2009/netcdf INFO 2025-06-26 14:55:00,444 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.153.00_1S.nc INFO 2025-06-26 14:55:00,449 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_1S.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:55:00,450 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.153.00_cal.nc INFO 2025-06-26 14:55:00,456 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_cal.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:55:00,457 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.153.00_align.nc INFO 2025-06-26 14:55:00,463 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_align.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:55:00,469 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,473 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,477 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,481 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,485 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,489 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,493 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,497 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,502 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,506 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009153/2009.153.00 done. INFO 2025-06-26 14:55:00,506 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 14:55:00,507 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2009/odv/dorado_2009.153.00_1S_Gulper.txt INFO 2025-06-26 14:55:00,512 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2009.153.00/dorado_2009.153.00_1S_Gulper.txt /Volumes/AUVCTD/surveys/2009/odv done. INFO 2025-06-26 14:55:00,512 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.153.00/dorado_2009.153.00_processing.log /Volumes/AUVCTD/surveys/2009/netcdf