INFO 2025-06-26 14:29:38,912 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 14:29:38,912 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Kanna trex mission - ctdToUse = ctd1 INFO 2025-06-26 14:29:38,912 process.py process_mission():449 [1] Processing AUVCTD mission 2008.315.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 14:29:38,912 process.py download_process():165 [1] Download and processing steps for 2008.315.01 INFO 2025-06-26 14:29:38,913 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2008/2008315/2008.315.01 INFO 2025-06-26 14:29:38,913 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2008/2008315/2008.315.01 to /data/auv_data/dorado/missionlogs/2008.315.01 INFO 2025-06-26 14:29:44,988 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2008.315.01 INFO 2025-06-26 14:29:44,989 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/ctdDriver.log (8553556 bytes) INFO 2025-06-26 14:29:45,794 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.315.01/ctdDriver.log: [15141 23970 39894 41523 52641 55250 89731 96127] INFO 2025-06-26 14:29:45,846 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/ctdDriver2.log (8557069 bytes) INFO 2025-06-26 14:29:46,534 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.315.01/ctdDriver2.log: [32482 73954] INFO 2025-06-26 14:29:46,587 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/gps.log (134132 bytes) INFO 2025-06-26 14:29:46,612 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/hydroscatlog.log (8193718 bytes) INFO 2025-06-26 14:29:47,529 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.315.01/hydroscatlog.log: [ 7280 7281 34100 56943] INFO 2025-06-26 14:29:47,575 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/navigation.log (28751534 bytes) INFO 2025-06-26 14:29:50,007 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/isuslog.log (569141 bytes) INFO 2025-06-26 14:29:50,070 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/parosci.log (9993494 bytes) INFO 2025-06-26 14:29:51,044 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/tailCone.log (1196059 bytes) INFO 2025-06-26 14:29:51,205 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/biolume.log (6640748 bytes) INFO 2025-06-26 14:29:51,948 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 14:29:52,333 logs2netcdfs.py download_process_logs():807 [1] Time to process: 7.34 seconds INFO 2025-06-26 14:29:52,333 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2008.315.01/lopc.bin (11868984 bytes) INFO 2025-06-26 14:29:52,334 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 14:29:52 2025 INFO 2025-06-26 14:29:52,334 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2008.315.01/parosci.nc INFO 2025-06-26 14:29:52,334 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:29:52,334 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2008.315.01/parosci.nc INFO 2025-06-26 14:29:52,338 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1226334723.7, sensor_off_time = 1226359124.0 INFO 2025-06-26 14:29:52,338 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 24400 seconds. Expecting to read 48800 L frames from the lopc.bin file. INFO 2025-06-26 14:29:52,338 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 48800 records from the lopc.bin file. INFO 2025-06-26 14:29:52,651 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2008-11-10 16:32:03 Z and endTime = 2008-11-10 23:18:43 Z with 48800 records expected to be read from lopc.bin INFO 2025-06-26 14:29:52,652 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2008.315.01/lopc.bin INFO 2025-06-26 14:29:52,652 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2008.315.01/lopc.nc INFO 2025-06-26 14:29:52,652 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2008.315.01/lopc.nc INFO 2025-06-26 14:29:52,653 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2008.315.01 INFO 2025-06-26 14:29:52,653 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 INFO 2025-06-26 14:29:52,693 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 14:29:52,693 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 14:29:52,693 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ INFO 2025-06-26 14:29:55,946 lopcToNetCDF.py unpackLOPCbin():1013 [1] 10000 20571 5776 60 283 264 0 91 3.3 seconds, last L Frame: 48800 ERROR 2025-06-26 14:29:58,723 lopcToNetCDF.py main():2340 [1] UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8d in position 0: invalid start byte INFO 2025-06-26 14:29:58,723 lopcToNetCDF.py main():2341 [1] Failed to decode all of lopc.bin - resulting lopc.nc file likely incomplete INFO 2025-06-26 14:29:58,724 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2008.315.01/parosci.nc INFO 2025-06-26 14:29:58,724 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:29:58,724 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2008.315.01/parosci.nc INFO 2025-06-26 14:29:58,727 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1226334723.7, sensor_off_time = 1226359124.0 INFO 2025-06-26 14:29:58,728 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 24400 seconds. Expecting to read 48800 L frames from the lopc.bin file. INFO 2025-06-26 14:29:58,728 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 48800 records from the lopc.bin file. INFO 2025-06-26 14:29:58,728 lopcToNetCDF.py constructTimestampList():1340 [1] Calling correctSampleCountList() with sampleCountList[0] = 7295 and len(sampleCountList) = 18670 INFO 2025-06-26 14:29:58,729 lopcToNetCDF.py correctSampleCountList():1737 [1] Found overflows at indices: [] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py correctSampleCountList():1745 [1] Original sampleCountList = [ 7295 7296 7297 ... 31825 61444 31831] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py correctSampleCountList():1746 [1] Found 0 0 values at indices: [] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py correctSampleCountList():1779 [1] Found 0 stuck values at indices: [] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py deSpike():1588 [1] d_sampleCountList = [ 1 1 1 ... 1 29619 -29613] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py deSpike():1590 [1] Found 4 spike indicators at indices: [ 3175 3176 18668 18669] INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 36656 at index = 3175 INFO 2025-06-26 14:29:58,730 lopcToNetCDF.py deSpike():1611 [1] Single point spike, interpolating over this point INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1617 [1] minIndx = 3173, indx = 3175, maxIndx = 3178 INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1619 [1] Before interpolation: [11476 11477 36656 11483 11484] INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1630 [1] After interpolation: [11476 11477 11480 11483 11484] INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 11483 at index = 3176 INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 61444 at index = 18668 INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1611 [1] Single point spike, interpolating over this point INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1617 [1] minIndx = 18666, indx = 18668, maxIndx = 18669 INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1619 [1] Before interpolation: [31824 31825 61444] INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1630 [1] After interpolation: [31824 31825 31828] INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 31831 at index = 18669 INFO 2025-06-26 14:29:58,731 lopcToNetCDF.py correctSampleCountList():1805 [1] After despike() sampleCountList = [ 7295 7296 7297 ... 31825 31828 31831] INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1347 [1] correctSampleCountList() returned correctedSampleCountList = [ 7295 7296 7297 ... 31825 31828 31831] with len(correctedSampleCountList) = 18670 INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1358 [1] Subtracting 7295 from all values of correctedSampleCountList INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1363 [1] Constructing timestampArray from instrument corrected sampleCount and constant deltaT = 0.500000 INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1368 [1] New re-zeroed correctedSampleCountList = [0.00000e+00 5.00000e-01 1.00000e+00 ... 1.22650e+04 1.22665e+04 1.22680e+04] INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1379 [1] timestampArray = [1.22633472e+09 1.22633472e+09 1.22633472e+09 ... 1.22634699e+09 1.22634699e+09 1.22634699e+09] INFO 2025-06-26 14:29:58,732 lopcToNetCDF.py constructTimestampList():1380 [1] timestampArray[:2] = [1226334723.7 1226334724.2, ..., timestampArray[-2:] = 1226346990.2 1226346991.7] INFO 2025-06-26 14:29:58,751 lopcToNetCDF.py constructTimestampList():1389 [1] timestampList[:2] = [np.float64(1226334723.708257), np.float64(1226334724.208257)], ..., timestampList[-2:] = [np.float64(1226346990.208257), np.float64(1226346991.708257)]] INFO 2025-06-26 14:29:58,751 lopcToNetCDF.py constructTimestampList():1394 [1] Subsampling correctedSampleCountList (len = 18670) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 14:29:58,751 lopcToNetCDF.py constructTimestampList():1399 [1] lFrameCountWrittenList[:2] = [20, 41], ... lFrameCountWrittenList[-2:] = [18458, 18479] INFO 2025-06-26 14:29:58,752 lopcToNetCDF.py constructTimestampList():1420 [1] len(subSampledCorrectedSampleCountList) = 880 INFO 2025-06-26 14:29:58,752 lopcToNetCDF.py constructTimestampList():1439 [1] len(timestampList) = 18670 INFO 2025-06-26 14:29:58,752 lopcToNetCDF.py constructTimestampList():1440 [1] timestampList[:2] = [np.float64(1226334723.708257), np.float64(1226334724.208257)], ..., timestampList[-2:] = [np.float64(1226346990.208257), np.float64(1226346991.708257)]] INFO 2025-06-26 14:29:58,752 lopcToNetCDF.py constructTimestampList():1446 [1] Subsampling timestampList (len = 18670) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 14:29:58,752 lopcToNetCDF.py constructTimestampList():1457 [1] Taking indices [[np.int32(19), np.int32(40)] ... [np.int32(18457), np.int32(18478)]] from timestampList to create subSampledTimestampList INFO 2025-06-26 14:29:58,753 lopcToNetCDF.py constructTimestampList():1463 [1] len(subSampledTimestampList) = 880 INFO 2025-06-26 14:29:58,753 lopcToNetCDF.py constructTimestampList():1477 [1] Finding elements of cFrameEsecsList that != -9999 ERROR 2025-06-26 14:29:58,755 lopcToNetCDF.py constructTimestampList():1501 [1] Cannot interpolate to cFrameEsecsListInterpolated: array of sample points is empty INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2096 [1] Writing time axis for len(tsList) = 880 INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2099 [1] tsList[:1] = [np.float64(1226334733.208257)], ..., tsList[-2:] = [np.float64(1226346847.208257), np.float64(1226346862.208257)] INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2100 [1] Begin time = 2008-11-10 16:32:13 Z INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2103 [1] End time = 2008-11-10 19:54:22 Z INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2107 [1] Writing time axis for len(cFrameEsecsList) = 18484 INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2111 [1] cFrameEsecsList[:1] = [-9999], ..., cFrameEsecsList[-2:] = [-9999, -9999] INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2116 [1] Begin time = 1969-12-31 21:13:21 Z INFO 2025-06-26 14:29:58,769 lopcToNetCDF.py closeNetCDFFile():2120 [1] End time = 1969-12-31 21:13:21 Z INFO 2025-06-26 14:29:58,774 lopcToNetCDF.py main():2381 [1] Created file: /data/auv_data/dorado/missionnetcdfs/2008.315.01/lopc.nc INFO 2025-06-26 14:29:58,774 lopcToNetCDF.py main():2384 [1] Processing finished: Thu Jun 26 14:29:58 2025 Elapsed processing time from start of processing = 6 seconds INFO 2025-06-26 14:29:58,775 process.py calibrate():227 [1] Calibration steps for 2008.315.01 INFO 2025-06-26 14:29:58,983 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 14:29:58,985 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 14:29:59,376 calibrate.py _nudge_pos():1806 [1] 66: 0.130 0.0038067 -0.0024991 9261 30.88 18.299 -14.996 2008-11-10T17:03:59.996982016 INFO 2025-06-26 14:29:59,473 calibrate.py _nudge_pos():1806 [1] 76: 0.120 -0.0000154 -0.0000072 29 0.10 -23.610 -13.747 2008-11-10T17:04:15.005953792 INFO 2025-06-26 14:30:00,986 calibrate.py _nudge_pos():1806 [1] 232: 0.130 -0.0006732 0.0012655 9499 31.66 -3.155 7.406 2008-11-10T17:38:30.005176832 INFO 2025-06-26 14:30:01,056 calibrate.py _nudge_pos():1806 [1] 239: 0.120 0.0000310 0.0000091 165 0.55 8.405 3.091 2008-11-10T17:39:09.002505216 INFO 2025-06-26 14:30:02,601 calibrate.py _nudge_pos():1806 [1] 392: 0.140 0.0042997 -0.0032351 9690 32.31 19.752 -18.551 2008-11-10T18:13:59.999262208 INFO 2025-06-26 14:30:04,165 calibrate.py _nudge_pos():1806 [1] 553: 0.150 0.0012827 0.0025915 9459 31.53 6.037 15.230 2008-11-10T18:48:11.998690560 INFO 2025-06-26 14:30:05,758 calibrate.py _nudge_pos():1806 [1] 710: 0.160 0.0040831 -0.0036300 9505 31.70 19.122 -21.221 2008-11-10T19:22:29.997708032 INFO 2025-06-26 14:30:07,254 calibrate.py _nudge_pos():1806 [1] 865: 0.170 0.0028464 0.0038785 9459 31.53 13.396 22.794 2008-11-10T19:56:35.997547264 INFO 2025-06-26 14:30:08,789 calibrate.py _nudge_pos():1806 [1] 1025: 0.170 0.0044542 -0.0036077 9374 31.25 21.159 -21.394 2008-11-10T20:30:29.998208768 INFO 2025-06-26 14:30:10,238 calibrate.py _nudge_pos():1806 [1] 1175: 0.180 0.0013393 0.0027943 9244 30.81 6.450 16.804 2008-11-10T21:03:48.001336320 INFO 2025-06-26 14:30:11,734 calibrate.py _nudge_pos():1806 [1] 1328: 0.180 0.0046092 -0.0032779 9259 30.86 22.168 -19.680 2008-11-10T21:37:12.004052736 INFO 2025-06-26 14:30:13,333 calibrate.py _nudge_pos():1806 [1] 1492: 0.190 0.0031164 0.0035731 9504 31.68 14.597 20.899 2008-11-10T22:11:36.002659072 INFO 2025-06-26 14:30:13,616 calibrate.py _nudge_pos():1806 [1] 1521: 0.200 0.0000185 0.0000067 69 0.23 12.094 5.440 2008-11-10T22:12:17.999782144 INFO 2025-06-26 14:30:14,922 calibrate.py _nudge_pos():1806 [1] 1652: 0.200 0.0042544 -0.0031864 9218 30.73 20.552 -19.216 2008-11-10T22:45:12.004553472 INFO 2025-06-26 14:30:16,453 calibrate.py _nudge_pos():1806 [1] 1807: 0.010 0.0007390 0.0016313 9069 30.23 3.628 9.999 2008-11-10T23:18:00.199723008 INFO 2025-06-26 14:30:16,891 calibrate.py _nudge_pos():1862 [1] 1818: - - - 4 0.01 - - INFO 2025-06-26 14:30:16,891 calibrate.py _nudge_pos():1868 [1] Points in final series = 121617 WARNING 2025-06-26 14:30:17,143 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 14:30:30,099 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:30:37,186 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:30:37,944 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:30:37,946 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2008.315.01/ctd1.nc INFO 2025-06-26 14:30:37,948 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 14:30:37,948 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 14:30:37,948 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 14:30:43,389 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:30:44,141 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:30:44,143 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2008.315.01/ctd2.nc INFO 2025-06-26 14:30:44,145 calibrate.py _range_qc_combined_nc():898 [1] Setting 64 ctd2_salinity values to NaN INFO 2025-06-26 14:30:44,145 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 14:30:44,145 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 14:30:44,189 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 14:30:45,325 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 300 301 302 303 304 305 306 1380 1381 1382 1383 2580 2581 2582 2583 5460 5461 5462 5463 7620 7621 7622 7623 8280 12900 12901 12902 12903 12904 12905 12906 20460 20461 20462 24000 24001 24002 24003 24004 24005 24006 24007 29340 29341 29342 29343 29344 29580 29581 29582 29583 48180 48181 48182 48183 48184 52560 52561 52562 52563 52564 52565 52566 52567 52568 52569 64920 64921 64922 64923 64924 64925 73320 73321 73322 73323 73324 73325 73326 73680 100380 100500 100501 100502 100503 100504 100505 100506 135780 135781 135782 135783 191700 191701 191702 205260 205261 205262 205263 205264 205265 281940 281941 281942 281943 281944 281945 281946 281947 281948 281949 281950 281951 281952 349860 349861 349862 349863 349864 349865 357120 357121 357122 357123 357124 357125 359760 361380 361381 361382 361383 365460 365461 365462 365463 365464 365465 375180 375181 375182 375183 375184 375185 375186 382680 382681 382682 382683 382684 382685 382686 382687 382688 382689 382690 382691 419820 419821 419822 419823 419824 419825 419826 419827 419828 419829 419830 419831 420060 446160 446161 446162 489780 489781 489782 489783 489784 489785 489786 489787 489788 502740 502741 502742 502743 502744 502745 502746 502747 502748 512220 512221 512222 512223 512224 512225 512226 512227 512228 512229 512230 512231 512232 512233 512234 512235 512236 512237 512238 512239 512240 512241 512242 512243 512244 512245 512246 512247 512248 512249 512250 512251 513300 553680 553681 553682 553683 553684 553685 553686 553687 553688 553689 553690 553691 584100 584101 584102 584103 584104 584105 584106 584107 586620 586621 606060 606061 606062 606063 606064 618420 618421 618422 618423 618424 618425 618426 618427 618428 618429 618430 618431 621660 621661 621662 621663 621664 621665 621666 621780 621781 621782 621783 621784 621785 625920 625921 625922 625923 625924 646560 646561 646562 646563 646564 646565 646566 646567 832440 832441 832442 832443 832444 832445 832446 832447 832448 832449 832450 832451 857580 857581 857582 857583 857584 857585 857586 857587 857588 857589 857590 857591 857592 892860 897480 897481 897482 897483 903660 903661 903662 938400 938401 938402 938403 938404 938405 938406 938407 938408 970140 970141 971880 971881 971882 971883 974400 974401 974402 974403 974404 974405 974406 974407 974408 974409 978060 978180 978181 978182 978183 978184 978185 978186 978187 978188 978189 986520 986521 986522 986523 986524 986525 986526 986527 986528 986529 986530 990600 990601 990602 990603 990604 990605 990606 990607 990608 990609 990610 990611 993240 993241 993242 993243 993244 993245 993246 993247 993248 993249 993250 993251 1008240 1008241 1008242 1008243 1008244 1008245 1008246 1008247 1008248 1049820 1092660 1094280 1094281 1094282 1094283 1094284 1094285 1094286 1094287 1094288 1094289 1098600 1098601 1106820 1106821 1106822 1111380 1111381 1134240 1134241 1134242 1202100 1202101 1202102 1202103 1222140 1222141 1222142 1222143 1222144 1222145 1223580 1223581 1223582 1223583 1223584 1223585 1223586 1223587 1223588 1223589 1235760 1235761 1235762 1235763 1235764 1235765 1235766 1235767 1235768 1258380 1258381 1258382 1258383 1258384 1258385 1267800 1267801 1267802 1267803 1267804 1267805 1267806 1267807 1267808 1267809 1267810 1267811 1267812 1267813 1267814 1267815 1267816 1267817 1267818 1267819 1267820 1362540 1362541 1362542 1362543 1362544 1362545 1362546 1362547 1362548 1362549 1362550 1362551 1372500 1372501 1372502 1463160 1463161 1463162 1463163] INFO 2025-06-26 14:30:45,548 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 14:30:45,555 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 14:30:45,565 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2008.315.01 INFO 2025-06-26 14:30:45,589 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_cal.nc INFO 2025-06-26 14:30:53,390 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, lopc_LCcount, lopc_countListSum, lopc_flowSpeed, lopc_nonTransCount, lopc_time, lopc_transCount, 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 14:30:53,399 process.py align():251 [1] Alignment steps for 2008.315.01 INFO 2025-06-26 14:30:53,431 align.py process_cal():139 [1] Processing dorado_2008.315.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2008.315.01 INFO 2025-06-26 14:30:53,466 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:30:53,470 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:30:53,553 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:30:53,559 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:30:53,640 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:30:53,647 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:30:53,695 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 14:30:53,695 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 14:30:53,726 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:30:53,731 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:30:53,809 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:53,816 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:30:53,884 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:53,890 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:30:53,961 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:53,966 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:30:54,037 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,042 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,113 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,118 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,187 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,192 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,263 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,268 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,338 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,343 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,415 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,421 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,492 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,497 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,567 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,573 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,645 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,650 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,721 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,725 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,796 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,802 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,902 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,909 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:54,982 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:54,987 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:55,065 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:55,070 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:55,145 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:55,151 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:55,228 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:55,233 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:55,310 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.315.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:30:55,315 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:30:55,400 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:30:55,458 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:30:55,517 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:30:55,584 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 14:30:55,647 align.py process_cal():249 [1] lopc_countListSum: instrument_sample_rate_hz = 0.07 INFO 2025-06-26 14:30:55,707 align.py process_cal():249 [1] lopc_transCount: instrument_sample_rate_hz = 0.07 INFO 2025-06-26 14:30:55,760 align.py process_cal():249 [1] lopc_nonTransCount: instrument_sample_rate_hz = 0.07 INFO 2025-06-26 14:30:55,816 align.py process_cal():249 [1] lopc_LCcount: instrument_sample_rate_hz = 0.07 INFO 2025-06-26 14:30:55,869 align.py process_cal():249 [1] lopc_flowSpeed: instrument_sample_rate_hz = 0.07 INFO 2025-06-26 14:30:55,922 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.02 INFO 2025-06-26 14:30:55,945 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_align.nc INFO 2025-06-26 14:30:56,041 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, lopc_LCcount, lopc_countListSum, lopc_depth, lopc_flowSpeed, lopc_latitude, lopc_longitude, lopc_nonTransCount, lopc_time, lopc_transCount, 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 14:30:56,044 process.py resample():273 [1] Resampling steps for 2008.315.01 INFO 2025-06-26 14:30:56,045 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 14:30:56,074 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_align.nc mission netCDF file INFO 2025-06-26 14:30:56,081 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_align.nc mission netCDF file INFO 2025-06-26 14:30:56,082 resample.py get_mission_start_end():1145 [1] navigation: 2008-11-10T16:32:35.346089728 to 2008-11-10T23:18:43.996722688 (0 days 00:00:00.089993728 before mission_end) INFO 2025-06-26 14:30:56,084 resample.py get_mission_start_end():1145 [1] hs2 : 2008-11-10T16:32:09.247877376 to 2008-11-10T23:18:43.906728704 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 14:30:56,086 resample.py get_mission_start_end():1145 [1] ctd1 : 2008-11-10T16:32:30.546418432 to 2008-11-10T23:18:44.086716416 (0 days 00:00:00 before mission_end) INFO 2025-06-26 14:30:56,088 resample.py get_mission_start_end():1145 [1] ctd2 : 2008-11-10T16:32:30.706407424 to 2008-11-10T23:18:44.086716416 (0 days 00:00:00 before mission_end) INFO 2025-06-26 14:30:56,089 resample.py get_mission_start_end():1145 [1] isus : 2008-11-10T16:33:24.012755712 to 2008-11-10T23:18:42.926796032 (0 days 00:00:01.159920384 before mission_end) INFO 2025-06-26 14:30:56,090 resample.py get_mission_start_end():1145 [1] biolume : 2008-11-10T16:32:03.028269312 to 2008-11-10T23:18:43.056752640 (0 days 00:00:01.029963776 before mission_end) INFO 2025-06-26 14:30:56,092 resample.py get_mission_start_end():1145 [1] lopc : 2008-11-10T16:32:13.208257024 to 2008-11-10T19:54:22.208257024 (0 days 03:24:21.878459392 before mission_end) WARNING 2025-06-26 14:30:56,093 resample.py get_mission_start_end():1156 [1] Instrument lopc has a gap > 5 minutes at the end of the mission: 0 days 03:24:21.878459392 INFO 2025-06-26 14:30:56,094 resample.py get_mission_start_end():1145 [1] tailcone : 2008-11-10T16:32:07.827974656 to 2008-11-10T23:18:43.956725248 (0 days 00:00:00.129991168 before mission_end) INFO 2025-06-26 14:30:56,094 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_align.nc mission netCDF file INFO 2025-06-26 14:30:56,095 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,361 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,408 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,452 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,498 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,538 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,579 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,619 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,658 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,694 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,729 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,764 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,801 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,837 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,874 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,910 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,945 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:56,983 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,021 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,060 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,097 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,135 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,172 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,189 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,205 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,219 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,236 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,248 resample.py resample_variable():1031 [1] Resampling lopc_countListSum with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,248 resample.py resample_variable():1038 [1] Padding lopc_countListSum with 0 days 03:24:21.878459392 of NaNs to the end of mission INFO 2025-06-26 14:30:57,259 resample.py resample_variable():1031 [1] Resampling lopc_transCount with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,259 resample.py resample_variable():1038 [1] Padding lopc_transCount with 0 days 03:24:21.878459392 of NaNs to the end of mission INFO 2025-06-26 14:30:57,269 resample.py resample_variable():1031 [1] Resampling lopc_nonTransCount with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,270 resample.py resample_variable():1038 [1] Padding lopc_nonTransCount with 0 days 03:24:21.878459392 of NaNs to the end of mission INFO 2025-06-26 14:30:57,280 resample.py resample_variable():1031 [1] Resampling lopc_LCcount with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,280 resample.py resample_variable():1038 [1] Padding lopc_LCcount with 0 days 03:24:21.878459392 of NaNs to the end of mission INFO 2025-06-26 14:30:57,290 resample.py resample_variable():1031 [1] Resampling lopc_flowSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,290 resample.py resample_variable():1038 [1] Padding lopc_flowSpeed with 0 days 03:24:21.878459392 of NaNs to the end of mission INFO 2025-06-26 14:30:57,307 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 14:30:57,572 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_1S.nc INFO 2025-06-26 14:30:59,619 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 14:31:10,777 create_products.py gulper_odv():522 [1] Wrote 10 Gulper data lines to /data/auv_data/dorado/missionodvs/2008.315.01/dorado_2008.315.01_1S_Gulper.txt INFO 2025-06-26 14:31:10,777 process.py archive():337 [1] Archiving steps for 2008.315.01 INFO 2025-06-26 14:31:10,777 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01, BASE_PATH = /data/auv_data INFO 2025-06-26 14:31:10,779 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01 files to /Volumes/AUVCTD/surveys/2008/netcdf INFO 2025-06-26 14:31:10,779 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.315.01_1S.nc INFO 2025-06-26 14:31:10,803 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_1S.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:31:10,804 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.315.01_cal.nc INFO 2025-06-26 14:31:10,905 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_cal.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:31:10,906 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.315.01_align.nc INFO 2025-06-26 14:31:10,998 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_align.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:31:11,028 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,053 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,058 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,082 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,158 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,165 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,192 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,201 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,267 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,298 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008315/2008.315.01 done. INFO 2025-06-26 14:31:11,298 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 14:31:11,299 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2008/odv/dorado_2008.315.01_1S_Gulper.txt INFO 2025-06-26 14:31:11,305 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2008.315.01/dorado_2008.315.01_1S_Gulper.txt /Volumes/AUVCTD/surveys/2008/odv done. INFO 2025-06-26 14:31:11,306 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.315.01/dorado_2008.315.01_processing.log /Volumes/AUVCTD/surveys/2008/netcdf