INFO 2025-06-26 20:38:54,617 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 20:38:54,617 process.py process_mission():434 [1] dorado_info[mission]["comment"] = SIMZ October 2014 Northern Monterey Bay gulper missions - ctdToUse = ctd1 INFO 2025-06-26 20:38:54,617 process.py process_mission():449 [1] Processing SIMZ October 2014 mission 2014.289.04 by user docker_user on host eae60d30a712 INFO 2025-06-26 20:38:54,617 process.py download_process():165 [1] Download and processing steps for 2014.289.04 INFO 2025-06-26 20:38:54,617 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2014/2014289/2014.289.04 INFO 2025-06-26 20:38:54,618 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2014/2014289/2014.289.04 to /data/auv_data/dorado/missionlogs/2014.289.04 INFO 2025-06-26 20:38:59,968 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2014.289.04 INFO 2025-06-26 20:38:59,968 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/ctdDriver.log (10322598 bytes) INFO 2025-06-26 20:39:00,943 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/ctdDriver2.log (10310015 bytes) INFO 2025-06-26 20:39:01,806 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/gps.log (103604 bytes) INFO 2025-06-26 20:39:01,826 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/hydroscatlog.log (9038170 bytes) INFO 2025-06-26 20:39:02,759 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/navigation.log (38690946 bytes) INFO 2025-06-26 20:39:05,533 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/isuslog.log (668181 bytes) INFO 2025-06-26 20:39:05,600 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/parosci.log (12698390 bytes) INFO 2025-06-26 20:39:06,662 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/tailCone.log (6459979 bytes) INFO 2025-06-26 20:39:07,464 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/biolume.log (7519038 bytes) INFO 2025-06-26 20:39:08,185 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 20:39:08,549 logs2netcdfs.py download_process_logs():807 [1] Time to process: 8.58 seconds INFO 2025-06-26 20:39:08,549 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2014.289.04/lopc.bin (31697526 bytes) INFO 2025-06-26 20:39:08,550 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 20:39:08 2025 INFO 2025-06-26 20:39:08,550 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2014.289.04/parosci.nc INFO 2025-06-26 20:39:08,550 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 20:39:08,550 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2014.289.04/parosci.nc INFO 2025-06-26 20:39:08,553 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1413474427.6, sensor_off_time = 1413501341.8 INFO 2025-06-26 20:39:08,553 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 26914 seconds. Expecting to read 53828 L frames from the lopc.bin file. INFO 2025-06-26 20:39:08,553 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 53828 records from the lopc.bin file. INFO 2025-06-26 20:39:08,865 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2014-10-16 15:47:07 Z and endTime = 2014-10-16 23:15:41 Z with 53828 records expected to be read from lopc.bin INFO 2025-06-26 20:39:08,866 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2014.289.04/lopc.bin INFO 2025-06-26 20:39:08,866 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2014.289.04/lopc.nc INFO 2025-06-26 20:39:08,866 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2014.289.04/lopc.nc INFO 2025-06-26 20:39:08,866 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2014.289.04 INFO 2025-06-26 20:39:08,867 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 WARNING 2025-06-26 20:39:08,870 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = A0188781 WARNING 2025-06-26 20:39:08,870 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = INFO 2025-06-26 20:39:08,917 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 20:39:08,917 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 20:39:08,917 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ INFO 2025-06-26 20:39:22,876 lopcToNetCDF.py unpackLOPCbin():1013 [1] 10000 16615 37503 1 0 0 0 0 14.0 seconds, last L Frame: 53828 INFO 2025-06-26 20:39:28,539 lopcToNetCDF.py unpackLOPCbin():1013 [1] 20000 26615 51264 1 0 0 0 0 5.7 seconds, last L Frame: 53828 INFO 2025-06-26 20:39:35,116 lopcToNetCDF.py unpackLOPCbin():1013 [1] 30000 36615 65879 1 0 0 0 0 6.6 seconds, last L Frame: 53828 INFO 2025-06-26 20:39:42,094 lopcToNetCDF.py unpackLOPCbin():1013 [1] 40000 46616 82393 2 0 0 0 0 7.0 seconds, last L Frame: 53828 INFO 2025-06-26 20:39:50,839 lopcToNetCDF.py unpackLOPCbin():1013 [1] 50000 56616 105416 2 0 0 0 0 8.7 seconds, last L Frame: 53828 INFO 2025-06-26 20:39:53,138 lopcToNetCDF.py main():2345 [1] >>> Done reading file. INFO 2025-06-26 20:39:53,138 lopcToNetCDF.py main():2346 [1] lFrameCount = 53837, mFrameCount = 110970 INFO 2025-06-26 20:39:53,139 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2014.289.04/parosci.nc INFO 2025-06-26 20:39:53,139 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 20:39:53,139 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2014.289.04/parosci.nc INFO 2025-06-26 20:39:53,142 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1413474427.6, sensor_off_time = 1413501341.8 INFO 2025-06-26 20:39:53,142 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 26914 seconds. Expecting to read 53828 L frames from the lopc.bin file. INFO 2025-06-26 20:39:53,142 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 53828 records from the lopc.bin file. INFO 2025-06-26 20:39:53,143 lopcToNetCDF.py constructTimestampList():1340 [1] Calling correctSampleCountList() with sampleCountList[0] = 6013 and len(sampleCountList) = 53837 INFO 2025-06-26 20:39:53,147 lopcToNetCDF.py correctSampleCountList():1737 [1] Found overflows at indices: [] INFO 2025-06-26 20:39:53,147 lopcToNetCDF.py correctSampleCountList():1745 [1] Original sampleCountList = [ 6013 6014 6015 ... 60451 60452 60453] INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py correctSampleCountList():1746 [1] Found 0 0 values at indices: [] INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py correctSampleCountList():1779 [1] Found 0 stuck values at indices: [] INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py deSpike():1588 [1] d_sampleCountList = [1 1 1 ... 1 1 1] INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py deSpike():1590 [1] Found 1 spike indicators at indices: [6] INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 6622 at index = 6 INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py deSpike():1714 [1] This is the last element in spike_indx. No need to deSpike(). INFO 2025-06-26 20:39:53,148 lopcToNetCDF.py correctSampleCountList():1805 [1] After despike() sampleCountList = [ 6013 6014 6015 ... 60451 60452 60453] INFO 2025-06-26 20:39:53,149 lopcToNetCDF.py constructTimestampList():1347 [1] correctSampleCountList() returned correctedSampleCountList = [ 6013 6014 6015 ... 60451 60452 60453] with len(correctedSampleCountList) = 53837 INFO 2025-06-26 20:39:53,149 lopcToNetCDF.py constructTimestampList():1358 [1] Subtracting 6013 from all values of correctedSampleCountList INFO 2025-06-26 20:39:53,149 lopcToNetCDF.py constructTimestampList():1363 [1] Constructing timestampArray from instrument corrected sampleCount and constant deltaT = 0.500000 INFO 2025-06-26 20:39:53,149 lopcToNetCDF.py constructTimestampList():1368 [1] New re-zeroed correctedSampleCountList = [0.00000e+00 5.00000e-01 1.00000e+00 ... 2.72190e+04 2.72195e+04 2.72200e+04] INFO 2025-06-26 20:39:53,150 lopcToNetCDF.py constructTimestampList():1379 [1] timestampArray = [1.41347443e+09 1.41347443e+09 1.41347443e+09 ... 1.41350165e+09 1.41350165e+09 1.41350165e+09] INFO 2025-06-26 20:39:53,150 lopcToNetCDF.py constructTimestampList():1380 [1] timestampArray[:2] = [1413474427.6 1413474428.1, ..., timestampArray[-2:] = 1413501647.1 1413501647.6] INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1389 [1] timestampList[:2] = [np.float64(1413474427.581052), np.float64(1413474428.081052)], ..., timestampList[-2:] = [np.float64(1413501647.081052), np.float64(1413501647.581052)]] INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1394 [1] Subsampling correctedSampleCountList (len = 53837) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1399 [1] lFrameCountWrittenList[:2] = [20, 41], ... lFrameCountWrittenList[-2:] = [53801, 53822] INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1420 [1] len(subSampledCorrectedSampleCountList) = 2563 INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1439 [1] len(timestampList) = 53837 INFO 2025-06-26 20:39:53,205 lopcToNetCDF.py constructTimestampList():1440 [1] timestampList[:2] = [np.float64(1413474427.581052), np.float64(1413474428.081052)], ..., timestampList[-2:] = [np.float64(1413501647.081052), np.float64(1413501647.581052)]] INFO 2025-06-26 20:39:53,206 lopcToNetCDF.py constructTimestampList():1446 [1] Subsampling timestampList (len = 53837) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 20:39:53,206 lopcToNetCDF.py constructTimestampList():1457 [1] Taking indices [[np.int32(19), np.int32(40)] ... [np.int32(53800), np.int32(53821)]] from timestampList to create subSampledTimestampList INFO 2025-06-26 20:39:53,208 lopcToNetCDF.py constructTimestampList():1463 [1] len(subSampledTimestampList) = 2563 INFO 2025-06-26 20:39:53,209 lopcToNetCDF.py constructTimestampList():1477 [1] Finding elements of cFrameEsecsList that != -9999 INFO 2025-06-26 20:39:53,230 lopcToNetCDF.py closeNetCDFFile():2096 [1] Writing time axis for len(tsList) = 2563 INFO 2025-06-26 20:39:53,230 lopcToNetCDF.py closeNetCDFFile():2099 [1] tsList[:1] = [np.float64(1413474738.581052)], ..., tsList[-2:] = [np.float64(1413501629.581052), np.float64(1413501640.081052)] INFO 2025-06-26 20:39:53,230 lopcToNetCDF.py closeNetCDFFile():2100 [1] Begin time = 2014-10-16 15:52:18 Z INFO 2025-06-26 20:39:53,230 lopcToNetCDF.py closeNetCDFFile():2103 [1] End time = 2014-10-16 23:20:40 Z INFO 2025-06-26 20:39:53,230 lopcToNetCDF.py closeNetCDFFile():2107 [1] Writing time axis for len(cFrameEsecsList) = 2563 INFO 2025-06-26 20:39:53,231 lopcToNetCDF.py closeNetCDFFile():2111 [1] cFrameEsecsList[:1] = [1.4134805e+09], ..., cFrameEsecsList[-2:] = [1.41349948e+09 1.41349948e+09] INFO 2025-06-26 20:39:53,231 lopcToNetCDF.py closeNetCDFFile():2116 [1] Begin time = 2014-10-16 17:28:19 Z INFO 2025-06-26 20:39:53,231 lopcToNetCDF.py closeNetCDFFile():2120 [1] End time = 2014-10-16 22:44:36 Z INFO 2025-06-26 20:39:53,235 lopcToNetCDF.py main():2381 [1] Created file: /data/auv_data/dorado/missionnetcdfs/2014.289.04/lopc.nc INFO 2025-06-26 20:39:53,235 lopcToNetCDF.py main():2384 [1] Processing finished: Thu Jun 26 20:39:53 2025 Elapsed processing time from start of processing = 44 seconds INFO 2025-06-26 20:39:53,237 process.py calibrate():227 [1] Calibration steps for 2014.289.04 INFO 2025-06-26 20:39:53,461 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 20:39:53,463 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 20:39:54,302 calibrate.py _nudge_pos():1806 [1] 123: 0.060 0.0009154 0.0000958 3070 10.23 13.250 1.736 2014-10-16T15:59:22.060736768 INFO 2025-06-26 20:39:54,983 calibrate.py _nudge_pos():1806 [1] 196: 0.070 -0.0007729 0.0018985 12900 43.00 -2.663 8.182 2014-10-16T16:43:34.059062528 INFO 2025-06-26 20:39:55,380 calibrate.py _nudge_pos():1806 [1] 238: 0.080 -0.0015516 0.0009691 12035 40.11 -5.730 4.477 2014-10-16T17:24:22.061362944 INFO 2025-06-26 20:39:56,011 calibrate.py _nudge_pos():1806 [1] 305: 0.090 -0.0012794 0.0004830 9180 30.60 -6.196 2.925 2014-10-16T17:56:04.061067008 INFO 2025-06-26 20:39:56,378 calibrate.py _nudge_pos():1806 [1] 344: 0.090 -0.0000016 0.0000171 20 0.06 -3.791 50.118 2014-10-16T17:56:46.058190080 INFO 2025-06-26 20:39:56,693 calibrate.py _nudge_pos():1806 [1] 377: 0.080 -0.0003397 0.0000130 4460 14.86 -3.387 0.162 2014-10-16T18:12:10.064891136 INFO 2025-06-26 20:39:58,302 calibrate.py _nudge_pos():1806 [1] 544: 0.090 -0.0010939 0.0033665 10060 33.53 -4.835 18.604 2014-10-16T18:48:28.065687808 INFO 2025-06-26 20:39:59,615 calibrate.py _nudge_pos():1806 [1] 683: 0.090 -0.0004581 0.0035850 11880 39.60 -1.715 16.777 2014-10-16T19:30:22.063467264 INFO 2025-06-26 20:39:59,732 calibrate.py _nudge_pos():1806 [1] 695: 0.100 0.0000015 -0.0000053 165 0.55 0.420 -1.785 2014-10-16T19:31:06.060453120 INFO 2025-06-26 20:40:00,312 calibrate.py _nudge_pos():1806 [1] 755: 0.100 0.0000176 0.0029703 10255 34.18 0.076 16.103 2014-10-16T20:06:16.065907968 INFO 2025-06-26 20:40:00,382 calibrate.py _nudge_pos():1806 [1] 762: 0.100 -0.0000136 -0.0000000 175 0.58 -3.469 -0.010 2014-10-16T20:06:57.063099392 INFO 2025-06-26 20:40:01,031 calibrate.py _nudge_pos():1806 [1] 829: 0.100 0.0002988 0.0001831 2165 7.21 6.140 4.703 2014-10-16T20:15:16.058915840 INFO 2025-06-26 20:40:02,036 calibrate.py _nudge_pos():1806 [1] 933: 0.100 -0.0000276 0.0005986 5245 17.48 -0.234 6.345 2014-10-16T20:34:28.059998464 INFO 2025-06-26 20:40:02,438 calibrate.py _nudge_pos():1806 [1] 974: 0.100 -0.0000008 0.0000051 20 0.06 -1.925 14.837 2014-10-16T20:35:12.066983680 INFO 2025-06-26 20:40:02,880 calibrate.py _nudge_pos():1806 [1] 1020: 0.100 -0.0007690 0.0003443 4955 16.51 -6.904 3.864 2014-10-16T20:52:28.066013184 INFO 2025-06-26 20:40:03,543 calibrate.py _nudge_pos():1806 [1] 1089: 0.110 -0.0012764 0.0001981 7430 24.76 -7.640 1.482 2014-10-16T21:18:22.059557120 INFO 2025-06-26 20:40:04,188 calibrate.py _nudge_pos():1806 [1] 1155: 0.110 -0.0017190 0.0001177 10355 34.51 -7.382 0.632 2014-10-16T21:53:58.063230720 INFO 2025-06-26 20:40:04,839 calibrate.py _nudge_pos():1806 [1] 1222: 0.120 -0.0017354 -0.0001147 10590 35.30 -7.286 -0.602 2014-10-16T22:30:22.063616512 INFO 2025-06-26 20:40:05,299 calibrate.py _nudge_pos():1806 [1] 1269: 0.120 -0.0000222 0.0000189 15 0.05 -70.651 75.219 2014-10-16T22:31:12.060191744 INFO 2025-06-26 20:40:05,319 calibrate.py _nudge_pos():1806 [1] 1271: 0.120 -0.0005908 0.0000312 7755 25.85 -3.387 0.224 2014-10-16T22:57:04.063872000 INFO 2025-06-26 20:40:05,656 calibrate.py _nudge_pos():1806 [1] 1305: 0.120 0.0000420 0.0001131 4815 16.05 0.388 1.307 2014-10-16T23:13:40.065641216 INFO 2025-06-26 20:40:06,845 calibrate.py _nudge_pos():1862 [1] 1379: - - - 3 0.01 - - INFO 2025-06-26 20:40:06,845 calibrate.py _nudge_pos():1868 [1] Points in final series = 134335 INFO 2025-06-26 20:40:08,084 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 20:40:09,081 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 35 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 20:40:09,874 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 35 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 20:40:09,877 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2014.289.04/ctd1.nc INFO 2025-06-26 20:40:09,878 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 20:40:09,878 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 20:40:09,878 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 20:40:10,863 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 67 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 20:40:11,693 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 67 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 20:40:11,696 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2014.289.04/ctd2.nc INFO 2025-06-26 20:40:11,697 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 20:40:11,698 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 20:40:11,698 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 20:40:11,741 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 20:40:13,500 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 20:40:13,558 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2014.289.04 INFO 2025-06-26 20:40:13,665 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_cal.nc INFO 2025-06-26 20:40:13,862 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_avg_biolume, biolume_depth, biolume_flow, biolume_raw, biolume_time, biolume_time60hz, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, 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 20:40:13,869 process.py align():251 [1] Alignment steps for 2014.289.04 INFO 2025-06-26 20:40:13,924 align.py process_cal():139 [1] Processing dorado_2014.289.04_cal.nc from /data/auv_data/dorado/missionnetcdfs/2014.289.04 INFO 2025-06-26 20:40:13,970 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 20:40:13,976 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 20:40:14,082 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 20:40:14,089 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 20:40:14,209 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 20:40:14,221 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 20:40:14,302 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 20:40:14,302 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 20:40:14,358 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 20:40:14,368 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 20:40:14,512 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:14,522 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:14,645 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:14,653 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:14,746 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:14,751 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:14,829 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:14,835 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:14,916 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:14,922 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,017 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,023 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,126 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,135 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,252 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,261 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,398 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,404 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,488 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,494 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,605 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,610 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,691 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,696 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,790 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,799 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:15,925 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:15,933 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,062 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,071 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,200 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,206 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,340 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,348 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,450 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,457 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,536 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,541 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,620 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,626 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,708 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,714 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,796 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2014.289.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 20:40:16,802 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 20:40:16,908 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 20:40:16,982 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 20:40:17,053 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 20:40:17,126 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 0.98 INFO 2025-06-26 20:40:17,202 align.py process_cal():249 [1] biolume_avg_biolume: instrument_sample_rate_hz = 0.98 INFO 2025-06-26 20:40:17,358 align.py process_cal():249 [1] biolume_raw: instrument_sample_rate_hz = 58.99 INFO 2025-06-26 20:40:18,235 align.py process_cal():249 [1] lopc_countListSum: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 20:40:18,299 align.py process_cal():249 [1] lopc_transCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 20:40:18,365 align.py process_cal():249 [1] lopc_nonTransCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 20:40:18,428 align.py process_cal():249 [1] lopc_LCcount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 20:40:18,490 align.py process_cal():249 [1] lopc_flowSpeed: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 20:40:18,556 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 20:40:18,621 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_align.nc INFO 2025-06-26 20:40:18,822 align.py write_netcdf():342 [1] Data variables written: biolume_avg_biolume, biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_raw, biolume_time, biolume_time60hz, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, 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 20:40:18,826 process.py resample():273 [1] Resampling steps for 2014.289.04 INFO 2025-06-26 20:40:18,827 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 20:40:18,877 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_align.nc mission netCDF file INFO 2025-06-26 20:40:18,884 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_align.nc mission netCDF file INFO 2025-06-26 20:40:18,885 resample.py get_mission_start_end():1145 [1] navigation: 2014-10-16T15:47:54.877812224 to 2014-10-16T23:15:41.667310848 (0 days 00:04:58.413741312 before mission_end) INFO 2025-06-26 20:40:18,887 resample.py get_mission_start_end():1145 [1] hs2 : 2014-10-16T15:47:12.010748672 to 2014-10-16T23:15:41.587316480 (0 days 00:04:58.493735680 before mission_end) INFO 2025-06-26 20:40:18,889 resample.py get_mission_start_end():1145 [1] ctd1 : 2014-10-16T15:47:42.598653440 to 2014-10-16T23:15:41.777303552 (0 days 00:04:58.303748608 before mission_end) INFO 2025-06-26 20:40:18,892 resample.py get_mission_start_end():1145 [1] ctd2 : 2014-10-16T15:48:15.436403712 to 2014-10-16T23:15:41.847298560 (0 days 00:04:58.233753600 before mission_end) INFO 2025-06-26 20:40:18,894 resample.py get_mission_start_end():1145 [1] isus : 2014-10-16T15:48:21.705974272 to 2014-10-16T23:15:41.167345408 (0 days 00:04:58.913706752 before mission_end) INFO 2025-06-26 20:40:18,896 resample.py get_mission_start_end():1145 [1] biolume : 2014-10-16T15:47:05.891133696 to 2014-10-16T23:15:40.857332224 (0 days 00:04:59.223719936 before mission_end) INFO 2025-06-26 20:40:18,897 resample.py get_mission_start_end():1145 [1] lopc : 2014-10-16T15:52:18.581052160 to 2014-10-16T23:20:40.081052160 (0 days 00:00:00 before mission_end) INFO 2025-06-26 20:40:18,899 resample.py get_mission_start_end():1145 [1] tailcone : 2014-10-16T15:47:07.601050880 to 2014-10-16T23:15:41.797302016 (0 days 00:04:58.283750144 before mission_end) INFO 2025-06-26 20:40:18,900 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_align.nc mission netCDF file INFO 2025-06-26 20:40:18,900 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,247 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,298 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,347 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,407 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,468 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,514 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,558 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,600 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,648 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,702 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,748 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,805 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,855 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,894 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,933 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:19,973 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,014 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,071 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,133 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,194 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,256 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,317 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,378 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,439 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,469 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,497 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,522 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,547 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,571 resample.py resample_variable():1031 [1] Resampling biolume_avg_biolume with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:20,580 resample.py set_proxy_parameters():520 [1] Setting biolume proxy parameters for period4 INFO 2025-06-26 20:40:20,580 resample.py add_biolume_proxies():549 [1] Adding biolume proxy variables computed from biolume_raw INFO 2025-06-26 20:40:21,655 resample.py add_biolume_proxies():595 [1] Using flash_threshold = 1.0000e+11 INFO 2025-06-26 20:40:21,904 resample.py add_biolume_proxies():633 [1] Zero flow values found: 26916 of 26916 - replaced with 350 ml/s INFO 2025-06-26 20:40:21,905 resample.py add_biolume_proxies():638 [1] Computing flashes per liter: nbflash_high, nbflash_low INFO 2025-06-26 20:40:22,009 resample.py add_biolume_proxies():666 [1] Saving flash intensity: biolume_intflash - the upper bound of the background envelope INFO 2025-06-26 20:40:22,063 resample.py add_biolume_proxies():683 [1] Saving Background bioluminescence (dinoflagellates proxy) INFO 2025-06-26 20:40:22,102 resample.py select_nighttime_bl_raw():432 [1] No sunset or sunrise found during this mission. INFO 2025-06-26 20:40:22,103 resample.py add_biolume_proxies():694 [1] No nighttime_bl_raw data to compute adinos, diatoms, hdinos proxies INFO 2025-06-26 20:40:22,121 resample.py resample_variable():1031 [1] Resampling lopc_countListSum with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,133 resample.py resample_variable():1031 [1] Resampling lopc_transCount with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,144 resample.py resample_variable():1031 [1] Resampling lopc_nonTransCount with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,155 resample.py resample_variable():1031 [1] Resampling lopc_LCcount with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,165 resample.py resample_variable():1031 [1] Resampling lopc_flowSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,210 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 20:40:22,499 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_1S.nc INFO 2025-06-26 20:40:26,007 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 20:40:49,349 create_products.py gulper_odv():522 [1] Wrote 20 Gulper data lines to /data/auv_data/dorado/missionodvs/2014.289.04/dorado_2014.289.04_1S_Gulper.txt INFO 2025-06-26 20:40:49,349 process.py archive():337 [1] Archiving steps for 2014.289.04 INFO 2025-06-26 20:40:49,349 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04, BASE_PATH = /data/auv_data INFO 2025-06-26 20:40:49,350 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04 files to /Volumes/AUVCTD/surveys/2014/netcdf INFO 2025-06-26 20:40:49,351 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2014/netcdf/dorado_2014.289.04_1S.nc INFO 2025-06-26 20:40:49,380 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_1S.nc /Volumes/AUVCTD/surveys/2014/netcdf done. INFO 2025-06-26 20:40:49,381 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2014/netcdf/dorado_2014.289.04_cal.nc INFO 2025-06-26 20:40:49,558 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_cal.nc /Volumes/AUVCTD/surveys/2014/netcdf done. INFO 2025-06-26 20:40:49,559 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2014/netcdf/dorado_2014.289.04_align.nc INFO 2025-06-26 20:40:49,799 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_align.nc /Volumes/AUVCTD/surveys/2014/netcdf done. INFO 2025-06-26 20:40:49,831 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:49,861 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:49,866 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/gps.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:49,892 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:49,991 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:49,999 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:50,034 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:50,060 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:50,141 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:50,227 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2014/2014289/2014.289.04 done. INFO 2025-06-26 20:40:50,227 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 20:40:50,229 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2014/odv/dorado_2014.289.04_1S_Gulper.txt INFO 2025-06-26 20:40:50,233 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2014.289.04/dorado_2014.289.04_1S_Gulper.txt /Volumes/AUVCTD/surveys/2014/odv done. INFO 2025-06-26 20:40:50,234 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2014.289.04/dorado_2014.289.04_processing.log /Volumes/AUVCTD/surveys/2014/netcdf