INFO 2025-06-26 10:53:57,957 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 10:53:57,957 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Conducted from the Sproul on John Ryan's LOCO project - ctdToUse = ctd1 INFO 2025-06-26 10:53:57,958 process.py process_mission():449 [1] Processing LOCO mission 2005.241.05 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:53:57,958 process.py download_process():165 [1] Download and processing steps for 2005.241.05 INFO 2025-06-26 10:53:57,958 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005241/2005.241.05 INFO 2025-06-26 10:53:57,958 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005241/2005.241.05 to /data/auv_data/dorado/missionlogs/2005.241.05 INFO 2025-06-26 10:54:01,553 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.241.05 INFO 2025-06-26 10:54:01,554 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/ctdDriver.log (9274363 bytes) INFO 2025-06-26 10:54:02,250 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/ctdDriver2.log (9274269 bytes) INFO 2025-06-26 10:54:02,941 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/gps.log (66812 bytes) INFO 2025-06-26 10:54:02,957 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/hydroscatlog.log (6326414 bytes) INFO 2025-06-26 10:54:03,696 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/navigation.log (31096194 bytes) INFO 2025-06-26 10:54:05,920 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/isuslog.log (566165 bytes) INFO 2025-06-26 10:54:05,979 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/parosci.log (13534934 bytes) INFO 2025-06-26 10:54:07,123 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/tailCone.log (6329707 bytes) INFO 2025-06-26 10:54:07,896 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.241.05/biolume.log (7177132 bytes) INFO 2025-06-26 10:54:08,608 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:54:08,976 logs2netcdfs.py download_process_logs():807 [1] Time to process: 7.42 seconds WARNING 2025-06-26 10:54:08,976 process.py download_process():196 [1] No lopc.bin file for 2005.241.05 INFO 2025-06-26 10:54:08,976 process.py calibrate():227 [1] Calibration steps for 2005.241.05 INFO 2025-06-26 10:54:09,196 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 10:54:09,197 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:54:09,946 calibrate.py _nudge_pos():1806 [1] 94: 0.020 0.0000751 -0.0002806 2170 7.23 1.538 -7.191 2005-08-29T22:07:42.582671616 INFO 2025-06-26 10:54:10,521 calibrate.py _nudge_pos():1806 [1] 153: 0.020 -0.0003386 -0.0000826 9610 32.03 -1.566 -0.478 2005-08-29T22:40:42.587032064 INFO 2025-06-26 10:54:10,904 calibrate.py _nudge_pos():1806 [1] 193: 0.030 -0.0004247 0.0000294 9675 32.25 -1.952 0.169 2005-08-29T23:13:36.581804032 INFO 2025-06-26 10:54:11,635 calibrate.py _nudge_pos():1806 [1] 268: 0.030 -0.0004604 -0.0000272 9980 33.26 -2.052 -0.152 2005-08-29T23:48:06.579999488 INFO 2025-06-26 10:54:12,218 calibrate.py _nudge_pos():1806 [1] 328: 0.030 -0.0004334 -0.0000617 9935 33.11 -1.941 -0.345 2005-08-30T00:22:12.579838976 INFO 2025-06-26 10:54:12,306 calibrate.py _nudge_pos():1806 [1] 337: 0.030 -0.0000014 0.0000376 45 0.15 -1.425 47.553 2005-08-30T00:22:29.578674560 INFO 2025-06-26 10:54:12,364 calibrate.py _nudge_pos():1806 [1] 343: 0.030 0.0000194 -0.0000012 35 0.11 25.444 -1.925 2005-08-30T00:22:41.577852544 INFO 2025-06-26 10:54:12,730 calibrate.py _nudge_pos():1806 [1] 381: 0.030 -0.0005328 -0.0002354 9440 31.46 -2.512 -1.387 2005-08-30T00:54:48.585843328 INFO 2025-06-26 10:54:13,312 calibrate.py _nudge_pos():1806 [1] 440: 0.030 -0.0003508 -0.0005824 10630 35.43 -1.469 -3.046 2005-08-30T01:31:12.586229120 INFO 2025-06-26 10:54:13,768 calibrate.py _nudge_pos():1806 [1] 487: 0.030 -0.0014860 0.0010795 10150 33.83 -6.516 5.913 2005-08-30T02:05:48.584013440 INFO 2025-06-26 10:54:14,280 calibrate.py _nudge_pos():1806 [1] 539: 0.030 -0.0015330 0.0004419 9820 32.73 -6.946 2.502 2005-08-30T02:39:24.585907968 INFO 2025-06-26 10:54:14,683 calibrate.py _nudge_pos():1806 [1] 580: 0.050 -0.0011749 0.0008843 9610 32.03 -5.438 5.116 2005-08-30T03:12:06.581501952 INFO 2025-06-26 10:54:15,287 calibrate.py _nudge_pos():1806 [1] 640: 0.040 -0.0009862 0.0003851 6305 21.01 -6.956 3.396 2005-08-30T03:34:06.581075968 INFO 2025-06-26 10:54:15,678 calibrate.py _nudge_pos():1806 [1] 678: 0.050 -0.0000148 -0.0000008 20 0.06 -34.729 -2.320 2005-08-30T03:34:47.578267392 INFO 2025-06-26 10:54:15,709 calibrate.py _nudge_pos():1806 [1] 681: 0.040 -0.0019057 -0.0018964 7160 23.86 -11.835 -14.725 2005-08-30T03:58:42.579963008 INFO 2025-06-26 10:54:16,303 calibrate.py _nudge_pos():1806 [1] 739: 0.050 -0.0025199 -0.0020946 8595 28.65 -13.033 -13.549 2005-08-30T04:28:18.578298752 INFO 2025-06-26 10:54:16,953 calibrate.py _nudge_pos():1806 [1] 802: 0.050 -0.0024265 -0.0021175 8870 29.56 -12.158 -13.272 2005-08-30T04:58:54.582523776 INFO 2025-06-26 10:54:17,530 calibrate.py _nudge_pos():1806 [1] 857: 0.040 -0.0015886 -0.0010007 5310 17.70 -13.295 -10.478 2005-08-30T05:17:30.586072448 INFO 2025-06-26 10:54:18,142 calibrate.py _nudge_pos():1862 [1] 894: - - - 1 0.00 - - INFO 2025-06-26 10:54:18,142 calibrate.py _nudge_pos():1868 [1] Points in final series = 131755 WARNING 2025-06-26 10:54:18,389 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:54:19,410 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:54:20,484 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:54:21,297 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:54:21,300 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.241.05/ctd1.nc INFO 2025-06-26 10:54:21,301 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:54:21,302 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 10:54:21,302 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:54:22,246 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:54:23,049 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:54:23,051 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.241.05/ctd2.nc INFO 2025-06-26 10:54:23,053 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:54:23,053 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 10:54:23,053 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:54:23,092 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:54:24,377 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 201600 881760 881940 883140 993600 995400 997500 997860 998040 999480 1223460 1223640 1334220 1334400 1336140 1339200 1449060 1450440] INFO 2025-06-26 10:54:24,639 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:54:24,645 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 10:54:24,646 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.241.05 ERROR 2025-06-26 10:54:24,647 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.241.05 INFO 2025-06-26 10:54:24,749 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_cal.nc INFO 2025-06-26 10:54:24,860 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 10:54:24,865 process.py align():251 [1] Alignment steps for 2005.241.05 INFO 2025-06-26 10:54:24,895 align.py process_cal():139 [1] Processing dorado_2005.241.05_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.241.05 INFO 2025-06-26 10:54:24,932 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:54:24,936 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:54:25,036 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:54:25,042 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:54:25,133 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:54:25,139 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:54:25,195 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:54:25,195 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:54:25,232 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:54:25,238 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:54:25,328 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:54:25,333 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,415 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:54:25,420 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,498 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:54:25,503 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,585 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:25,590 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,672 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:25,677 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,762 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:25,767 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,847 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:25,852 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:25,938 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:25,944 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,028 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,034 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,116 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,122 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,203 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,208 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,292 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,297 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,379 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,383 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,469 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,474 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,555 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,560 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,645 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,651 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,734 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,740 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,823 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,829 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:26,910 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:26,916 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:27,000 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.241.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:54:27,005 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:54:27,112 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:54:27,184 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:54:27,254 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:54:27,328 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:54:27,406 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:54:27,472 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_align.nc INFO 2025-06-26 10:54:27,566 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 10:54:27,568 process.py resample():273 [1] Resampling steps for 2005.241.05 INFO 2025-06-26 10:54:27,569 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:54:27,596 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_align.nc mission netCDF file INFO 2025-06-26 10:54:27,602 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_align.nc mission netCDF file INFO 2025-06-26 10:54:27,604 resample.py get_mission_start_end():1145 [1] navigation: 2005-08-29T21:59:17.997238144 to 2005-08-30T05:18:28.782085632 (0 days 00:00:00.019998592 before mission_end) INFO 2025-06-26 10:54:27,606 resample.py get_mission_start_end():1145 [1] hs2 : 2005-08-29T21:59:00.308449792 to 2005-08-30T05:18:28.702091264 (0 days 00:00:00.099992960 before mission_end) INFO 2025-06-26 10:54:27,608 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-08-29T21:59:23.866836096 to 2005-08-30T05:18:28.742088320 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:54:27,610 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-08-29T21:59:24.026824960 to 2005-08-30T05:18:28.702091264 (0 days 00:00:00.099992960 before mission_end) INFO 2025-06-26 10:54:27,611 resample.py get_mission_start_end():1145 [1] isus : 2005-08-29T22:00:25.712599296 to 2005-08-30T05:18:28.792084992 (0 days 00:00:00.009999232 before mission_end) INFO 2025-06-26 10:54:27,613 resample.py get_mission_start_end():1145 [1] biolume : 2005-08-29T21:58:55.488745728 to 2005-08-30T05:18:27.642129408 (0 days 00:00:01.159954816 before mission_end) INFO 2025-06-26 10:54:27,615 resample.py get_mission_start_end():1145 [1] tailcone : 2005-08-29T21:58:55.878753408 to 2005-08-30T05:18:28.802084224 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:54:27,615 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_align.nc mission netCDF file INFO 2025-06-26 10:54:27,616 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:27,907 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:27,956 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,004 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,051 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,093 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,134 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,175 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,215 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,252 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,290 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,327 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,364 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,401 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,440 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,478 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,516 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,560 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,599 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,638 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,675 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,715 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,754 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,772 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,790 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,804 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,822 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:28,867 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:54:29,115 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_1S.nc INFO 2025-06-26 10:54:30,427 create_products.py gulper_odv():401 [1] No gulper times found for 2005.241.05 INFO 2025-06-26 10:54:30,428 process.py archive():337 [1] Archiving steps for 2005.241.05 INFO 2025-06-26 10:54:30,428 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05, BASE_PATH = /data/auv_data INFO 2025-06-26 10:54:30,429 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:54:30,430 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.241.05_1S.nc INFO 2025-06-26 10:54:30,453 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:54:30,455 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.241.05_cal.nc INFO 2025-06-26 10:54:30,570 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:54:30,572 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.241.05_align.nc INFO 2025-06-26 10:54:30,675 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:54:30,704 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,735 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,739 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,760 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,851 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,859 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,899 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,926 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,998 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005241/2005.241.05 done. INFO 2025-06-26 10:54:30,998 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:54:30,998 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.241.05/dorado_2005.241.05_processing.log /Volumes/AUVCTD/surveys/2005/netcdf