INFO 2025-06-26 14:21:03,408 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 14:21:03,408 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - North bay shelf survey - ctdToUse = ctd1 INFO 2025-06-26 14:21:03,408 process.py process_mission():449 [1] Processing AUVCTD mission 2008.289.03 by user docker_user on host eae60d30a712 INFO 2025-06-26 14:21:03,408 process.py download_process():165 [1] Download and processing steps for 2008.289.03 INFO 2025-06-26 14:21:03,408 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2008/2008289/2008.289.03 INFO 2025-06-26 14:21:03,408 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2008/2008289/2008.289.03 to /data/auv_data/dorado/missionlogs/2008.289.03 INFO 2025-06-26 14:21:10,763 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2008.289.03 INFO 2025-06-26 14:21:10,764 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/ctdDriver.log (23175460 bytes) INFO 2025-06-26 14:21:12,490 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.289.03/ctdDriver.log: [ 2212 7924 14387 22422 101485 120015 125049 159769 210774 210995] INFO 2025-06-26 14:21:12,594 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/ctdDriver2.log (23184429 bytes) INFO 2025-06-26 14:21:14,273 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.289.03/ctdDriver2.log: [ 81369 81684 134342] INFO 2025-06-26 14:21:14,378 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/gps.log (209516 bytes) INFO 2025-06-26 14:21:14,409 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/hydroscatlog.log (22172746 bytes) INFO 2025-06-26 14:21:16,668 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.289.03/hydroscatlog.log: [ 1 5268 203582] INFO 2025-06-26 14:21:16,758 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/navigation.log (77869034 bytes) INFO 2025-06-26 14:21:22,352 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/isuslog.log (1533749 bytes) INFO 2025-06-26 14:21:22,499 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.289.03/isuslog.log: [1 3 4 5 6 7 8] INFO 2025-06-26 14:21:22,504 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/parosci.log (26013878 bytes) INFO 2025-06-26 14:21:24,706 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/tailCone.log (3225451 bytes) INFO 2025-06-26 14:21:25,109 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/biolume.log (17963836 bytes) INFO 2025-06-26 14:21:26,844 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 14:21:27,779 logs2netcdfs.py download_process_logs():807 [1] Time to process: 17.02 seconds INFO 2025-06-26 14:21:27,780 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2008.289.03/lopc.bin (40657236 bytes) INFO 2025-06-26 14:21:27,780 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 14:21:27 2025 INFO 2025-06-26 14:21:27,780 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2008.289.03/parosci.nc INFO 2025-06-26 14:21:27,780 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:21:27,780 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2008.289.03/parosci.nc INFO 2025-06-26 14:21:27,784 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1224108262.8, sensor_off_time = 1224171752.9 INFO 2025-06-26 14:21:27,784 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 63490 seconds. Expecting to read 126980 L frames from the lopc.bin file. INFO 2025-06-26 14:21:27,784 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 126980 records from the lopc.bin file. INFO 2025-06-26 14:21:28,534 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2008-10-15 22:04:22 Z and endTime = 2008-10-16 15:42:32 Z with 126980 records expected to be read from lopc.bin INFO 2025-06-26 14:21:28,534 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2008.289.03/lopc.bin INFO 2025-06-26 14:21:28,535 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2008.289.03/lopc.nc INFO 2025-06-26 14:21:28,535 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2008.289.03/lopc.nc INFO 2025-06-26 14:21:28,535 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2008.289.03 INFO 2025-06-26 14:21:28,536 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 INFO 2025-06-26 14:21:28,583 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 14:21:28,583 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 14:21:28,583 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ ERROR 2025-06-26 14:21:29,766 process.py download_process():223 [1] UnexpectedAreaOfCode: Encountered unexpected area of code - lopc.nc file is probably corrupt INFO 2025-06-26 14:21:29,768 process.py calibrate():227 [1] Calibration steps for 2008.289.03 INFO 2025-06-26 14:21:30,281 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 14:21:30,284 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 14:21:31,053 calibrate.py _nudge_pos():1806 [1] 101: 0.020 -0.0000585 -0.0000326 1095 3.65 -2.378 -1.655 2008-10-15T22:09:35.734633216 INFO 2025-06-26 14:21:31,858 calibrate.py _nudge_pos():1806 [1] 182: 0.010 -0.0000384 0.0002713 9199 30.66 -0.186 1.640 2008-10-15T22:41:35.743103744 INFO 2025-06-26 14:21:31,889 calibrate.py _nudge_pos():1806 [1] 185: 0.010 0.0000111 0.0000178 40 0.13 12.640 25.390 2008-10-15T22:41:45.742418688 INFO 2025-06-26 14:21:32,382 calibrate.py _nudge_pos():1806 [1] 234: 0.080 0.0000171 -0.0000105 30 0.10 26.311 -20.048 2008-10-15T22:42:39.738719744 INFO 2025-06-26 14:21:32,484 calibrate.py _nudge_pos():1806 [1] 244: 0.020 -0.0000728 0.0001304 9354 31.18 -0.346 0.775 2008-10-15T23:13:59.739930880 INFO 2025-06-26 14:21:33,151 calibrate.py _nudge_pos():1806 [1] 311: 0.030 0.0000881 0.0001730 6210 20.70 0.631 1.549 2008-10-15T23:35:47.740326656 INFO 2025-06-26 14:21:33,746 calibrate.py _nudge_pos():1806 [1] 370: 0.030 0.0000726 -0.0000505 4390 14.63 0.736 -0.640 2008-10-15T23:51:23.736206592 INFO 2025-06-26 14:21:34,706 calibrate.py _nudge_pos():1806 [1] 465: 0.030 -0.0000888 -0.0000129 2470 8.23 -1.600 -0.290 2008-10-16T00:01:11.735925760 INFO 2025-06-26 14:21:35,284 calibrate.py _nudge_pos():1806 [1] 522: 0.040 0.0000539 0.0004244 5420 18.06 0.443 4.353 2008-10-16T00:20:11.737830144 INFO 2025-06-26 14:21:35,844 calibrate.py _nudge_pos():1806 [1] 575: 0.030 -0.0000341 0.0000694 2410 8.03 -0.631 1.602 2008-10-16T00:29:05.741248512 INFO 2025-06-26 14:21:36,332 calibrate.py _nudge_pos():1806 [1] 623: 0.040 0.0000333 -0.0000719 4955 16.51 0.299 -0.807 2008-10-16T00:46:23.740140800 INFO 2025-06-26 14:21:36,937 calibrate.py _nudge_pos():1806 [1] 682: 0.050 0.0000884 0.0000314 9339 31.13 0.421 0.187 2008-10-16T01:18:29.738200832 INFO 2025-06-26 14:21:37,725 calibrate.py _nudge_pos():1806 [1] 760: 0.060 0.0001860 0.0001345 9305 31.01 0.889 0.803 2008-10-16T01:50:47.735438848 INFO 2025-06-26 14:21:37,766 calibrate.py _nudge_pos():1806 [1] 764: 0.060 0.0000378 -0.0000011 35 0.11 49.412 -1.854 2008-10-16T01:50:57.734753792 INFO 2025-06-26 14:21:38,150 calibrate.py _nudge_pos():1806 [1] 802: 0.050 -0.0000227 -0.0000021 65 0.21 -15.772 -1.850 2008-10-16T01:51:47.741328128 INFO 2025-06-26 14:21:38,361 calibrate.py _nudge_pos():1806 [1] 822: 0.050 0.0001847 0.0000320 9354 31.18 0.878 0.190 2008-10-16T02:23:17.741854464 INFO 2025-06-26 14:21:39,165 calibrate.py _nudge_pos():1806 [1] 901: 0.070 0.0002272 0.0000950 9480 31.60 1.066 0.557 2008-10-16T02:56:11.736626432 INFO 2025-06-26 14:21:39,920 calibrate.py _nudge_pos():1806 [1] 975: 0.070 0.0002097 0.0000939 9294 30.98 1.003 0.561 2008-10-16T03:28:23.734275584 INFO 2025-06-26 14:21:40,679 calibrate.py _nudge_pos():1806 [1] 1048: 0.080 0.0000565 -0.0000061 4525 15.08 0.555 -0.075 2008-10-16T03:44:41.737277696 INFO 2025-06-26 14:21:41,208 calibrate.py _nudge_pos():1806 [1] 1099: 0.070 0.0000155 0.0003711 5090 16.96 0.135 4.053 2008-10-16T04:02:29.744114176 INFO 2025-06-26 14:21:41,820 calibrate.py _nudge_pos():1806 [1] 1157: 0.080 0.0014023 0.0000778 3374 11.25 18.468 1.282 2008-10-16T04:14:41.743968768 INFO 2025-06-26 14:21:42,399 calibrate.py _nudge_pos():1806 [1] 1213: 0.090 0.0000767 0.0001169 5365 17.88 0.635 1.211 2008-10-16T04:33:29.736696064 INFO 2025-06-26 14:21:42,988 calibrate.py _nudge_pos():1806 [1] 1270: 0.080 0.0010438 -0.0000141 2900 9.66 16.001 -0.271 2008-10-16T04:44:05.743126528 INFO 2025-06-26 14:21:43,055 calibrate.py _nudge_pos():1806 [1] 1276: 0.080 -0.0000224 0.0000207 20 0.06 -52.501 60.533 2008-10-16T04:44:15.742441728 INFO 2025-06-26 14:21:43,555 calibrate.py _nudge_pos():1806 [1] 1324: 0.090 0.0000113 0.0003321 4455 14.85 0.113 4.145 2008-10-16T04:59:53.738184448 INFO 2025-06-26 14:21:44,231 calibrate.py _nudge_pos():1806 [1] 1389: 0.110 0.0044988 0.0020835 12429 41.43 16.090 9.319 2008-10-16T05:42:23.743497216 INFO 2025-06-26 14:21:44,274 calibrate.py _nudge_pos():1806 [1] 1393: 0.090 -0.0000579 -0.0000935 40 0.13 -65.991 -133.284 2008-10-16T05:42:34.742743808 INFO 2025-06-26 14:21:44,841 calibrate.py _nudge_pos():1806 [1] 1448: 0.110 0.0048057 0.0020390 13055 43.51 16.370 8.683 2008-10-16T06:26:59.740178944 INFO 2025-06-26 14:21:45,361 calibrate.py _nudge_pos():1806 [1] 1498: 0.120 0.0049247 0.0019369 12534 41.78 17.476 8.590 2008-10-16T07:09:35.735081216 INFO 2025-06-26 14:21:45,928 calibrate.py _nudge_pos():1806 [1] 1552: 0.120 0.0046945 0.0018528 10774 35.91 19.387 9.560 2008-10-16T07:46:23.743822080 INFO 2025-06-26 14:21:46,724 calibrate.py _nudge_pos():1806 [1] 1628: 0.130 0.0013663 0.0002939 3135 10.45 19.399 5.212 2008-10-16T07:58:05.735732480 INFO 2025-06-26 14:21:47,446 calibrate.py _nudge_pos():1806 [1] 1697: 0.130 0.0000928 0.0000676 5030 16.76 0.821 0.747 2008-10-16T08:15:59.742157824 INFO 2025-06-26 14:21:48,047 calibrate.py _nudge_pos():1806 [1] 1754: 0.140 -0.0000352 -0.0000166 2390 7.96 -0.655 -0.386 2008-10-16T08:24:53.735576832 INFO 2025-06-26 14:21:48,598 calibrate.py _nudge_pos():1806 [1] 1806: 0.130 -0.0000081 0.0002968 4424 14.75 -0.081 3.729 2008-10-16T08:40:29.741456128 INFO 2025-06-26 14:21:48,620 calibrate.py _nudge_pos():1806 [1] 1808: 0.130 -0.0000182 0.0000003 95 0.31 -8.614 0.185 2008-10-16T08:40:49.740086016 INFO 2025-06-26 14:21:49,257 calibrate.py _nudge_pos():1806 [1] 1869: 0.140 -0.0000038 -0.0000106 2180 7.26 -0.077 -0.270 2008-10-16T08:49:05.736108032 INFO 2025-06-26 14:21:49,809 calibrate.py _nudge_pos():1806 [1] 1922: 0.130 0.0000089 -0.0000109 15 0.05 28.382 -43.169 2008-10-16T08:50:00.742339840 INFO 2025-06-26 14:21:49,841 calibrate.py _nudge_pos():1806 [1] 1925: 0.140 0.0000823 0.0000819 4395 14.65 0.834 1.037 2008-10-16T09:04:41.741987328 INFO 2025-06-26 14:21:50,453 calibrate.py _nudge_pos():1806 [1] 1983: 0.150 0.0001817 0.0000394 9583 31.95 0.843 0.229 2008-10-16T09:37:35.736759552 INFO 2025-06-26 14:21:51,211 calibrate.py _nudge_pos():1806 [1] 2054: 0.150 0.0002335 0.0000559 9669 32.23 1.074 0.322 2008-10-16T10:10:59.739475712 INFO 2025-06-26 14:21:51,834 calibrate.py _nudge_pos():1806 [1] 2113: 0.160 0.0001199 0.0000525 9340 31.13 0.571 0.312 2008-10-16T10:43:05.737536000 INFO 2025-06-26 14:21:52,512 calibrate.py _nudge_pos():1806 [1] 2177: 0.170 0.0002565 0.0001064 9405 31.35 1.212 0.629 2008-10-16T11:15:29.734363136 INFO 2025-06-26 14:21:53,018 calibrate.py _nudge_pos():1806 [1] 2225: 0.160 0.0000828 -0.0001388 35 0.11 108.295 -226.978 2008-10-16T11:16:23.740663296 INFO 2025-06-26 14:21:53,083 calibrate.py _nudge_pos():1806 [1] 2231: 0.170 0.0002761 0.0001007 9305 31.01 1.319 0.602 2008-10-16T11:47:29.742833408 INFO 2025-06-26 14:21:53,750 calibrate.py _nudge_pos():1806 [1] 2293: 0.170 0.0000318 0.0000408 775 2.58 1.826 2.927 2008-10-16T11:51:05.738036736 INFO 2025-06-26 14:21:54,408 calibrate.py _nudge_pos():1806 [1] 2353: 0.170 0.0000535 0.0003620 5194 17.31 0.457 3.874 2008-10-16T12:09:23.742818048 INFO 2025-06-26 14:21:54,918 calibrate.py _nudge_pos():1806 [1] 2400: 0.180 0.0012907 0.0000060 2769 9.23 20.713 0.121 2008-10-16T12:19:23.741715456 INFO 2025-06-26 14:21:55,419 calibrate.py _nudge_pos():1806 [1] 2447: 0.180 0.0001422 0.0001154 4959 16.53 1.274 1.294 2008-10-16T12:36:41.740607744 INFO 2025-06-26 14:21:55,902 calibrate.py _nudge_pos():1806 [1] 2492: 0.180 0.0009769 0.0001296 2240 7.46 19.389 3.217 2008-10-16T12:44:53.736903680 INFO 2025-06-26 14:21:56,404 calibrate.py _nudge_pos():1806 [1] 2539: 0.190 -0.0000090 0.0002658 4330 14.43 -0.093 3.414 2008-10-16T13:00:05.734427392 INFO 2025-06-26 14:21:56,958 calibrate.py _nudge_pos():1806 [1] 2591: 0.200 0.0044880 0.0020415 11294 37.65 17.664 10.049 2008-10-16T13:38:35.736181504 INFO 2025-06-26 14:21:56,981 calibrate.py _nudge_pos():1806 [1] 2593: 0.180 0.0000054 0.0000152 150 0.50 1.596 5.677 2008-10-16T13:39:06.744057344 INFO 2025-06-26 14:21:57,556 calibrate.py _nudge_pos():1806 [1] 2646: 0.200 0.0047750 0.0020351 11584 38.61 18.329 9.766 2008-10-16T14:18:35.741769984 INFO 2025-06-26 14:21:57,580 calibrate.py _nudge_pos():1806 [1] 2648: 0.200 -0.0000209 0.0000530 130 0.43 -7.200 22.858 2008-10-16T14:19:02.739920384 INFO 2025-06-26 14:21:58,100 calibrate.py _nudge_pos():1806 [1] 2696: 0.200 0.0048153 0.0019846 11898 39.66 18.002 9.272 2008-10-16T14:59:29.743659264 INFO 2025-06-26 14:21:58,694 calibrate.py _nudge_pos():1806 [1] 2751: 0.010 0.0049272 0.0019977 12507 41.70 17.525 8.878 2008-10-16T15:42:05.938547968 INFO 2025-06-26 14:21:59,268 calibrate.py _nudge_pos():1806 [1] 2804: 0.020 0.0001476 -0.0000790 4990 16.63 1.317 -0.880 2008-10-16T15:59:35.936617984 INFO 2025-06-26 14:21:59,935 calibrate.py _nudge_pos():1806 [1] 2866: 0.020 0.0005061 0.0005166 7075 23.58 3.184 4.060 2008-10-16T16:24:11.935505408 INFO 2025-06-26 14:22:00,291 calibrate.py _nudge_pos():1862 [1] 2865: - - - 3 0.01 - - INFO 2025-06-26 14:22:00,291 calibrate.py _nudge_pos():1868 [1] Points in final series = 329845 WARNING 2025-06-26 14:22:00,713 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 14:22:35,555 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 1 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:22:35,556 calibrate.py _geometric_depth_correction():3437 [1] hs2: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 INFO 2025-06-26 14:22:54,030 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 55 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:22:54,031 calibrate.py _geometric_depth_correction():3437 [1] ctd1: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 INFO 2025-06-26 14:22:55,964 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 55 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:22:55,964 calibrate.py _geometric_depth_correction():3437 [1] ctd1: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 INFO 2025-06-26 14:22:55,969 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2008.289.03/ctd1.nc INFO 2025-06-26 14:22:55,971 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 14:22:55,971 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 14:22:55,971 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 14:23:10,409 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 23 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:23:10,410 calibrate.py _geometric_depth_correction():3437 [1] ctd2: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 INFO 2025-06-26 14:23:12,386 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 23 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:23:12,387 calibrate.py _geometric_depth_correction():3437 [1] ctd2: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 INFO 2025-06-26 14:23:12,392 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2008.289.03/ctd2.nc INFO 2025-06-26 14:23:12,393 calibrate.py _range_qc_combined_nc():898 [1] Setting 156 ctd2_salinity values to NaN INFO 2025-06-26 14:23:12,393 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 14:23:12,394 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 14:23:14,738 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 14:23:17,801 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 73 900 901 902 903 904 905 906 12120 12121 12122 12123 12124 12125 12960 12961 12962 12963 12964 12965 21480 23820 23821 23822 23823 23824 23825 23826 41580 41581 41582 41583 41584 41585 41586 41587 41588 46620 46621 46622 46623 50100 50400 50820 51960 52080 52560 52561 52562 55080 55081 55082 55083 68040 68041 68042 68043 68044 68045 73500 73501 73502 73503 76020 76021 76022 76023 76024 76025 84780 84781 84782 84783 84784 84785 112200 112201 112202 112203 112204 112205 112206 112207 112208 128160 139320 139321 139322 164460 164461 164462 164463 181440 181441 185880 185881 185882 185883 185884 185885 185886 228360 228361 228362 228363 228364 228365 248160 256560 256561 260640 260641 260642 260643 260644 260645 260646 287460 287461 287462 287463 287464 287465 287466 287467 403920 403921 403922 403923 403924 403925 403926 508740 509160 509520 524520 524521 524522 524523 524524 524525 566580 566581 566582 566583 566584 566585 566586 566587 566588 566589 572520 572521 572522 572523 572524 572525 572526 572527 572528 648180 648181 648182 648183 648184 648185 648186 680700 680701 680702 925200 925201 925202 925203 979020 1000740 1000741 1000742 1000743 1000744 1010100 1010101 1010102 1010103 1010104 1010105 1010106 1010107 1010108 1091940 1117980 1117981 1117982 1117983 1117984 1117985 1225560 1225561 1225562 1283460 1283461 1283462 1283463 1283464 1319520 1321980 1321981 1321982 1321983 1321984 1321985 1450440 1450441 1450442 1450443 1450444 1450445 1450446 1650420 1650421 1650422 1675260 1675261 1675262 1726140 1726141 1726142 1726143 1726144 1726145 1726146 1727700 1727701 1894560 1894561 1894562 1894563 1922460 1922461 1922462 1922463 1958040 1958041 1958042 1958043 1958044 1958045 2095920 2095921 2095922 2229840 2316660 2316661 2316662 2316663 2316664 2316665 2324880 2324881 2324882 2324883 2324884 2324885 2324886 2360880 2360881 2360882 2360883 2360884 2360885 2360886 2360887 2360888 2360889 2360890 2388540 2388541 2388542 2388543 2388544 2388545 2388546 2397960 2397961 2397962 2397963 2397964 2397965 2397966 2397967 2400600 2400601 2400602 2400603 2400604 2400605 2400606 2400607 2400608 2452140 2452141 2498640 2498641 2498642 2498643 2498644 2498645 2498646 2599320 2599321 2599322 2599323 2644440 2644441 2644442 2644443 2644444 2644445 2644446 2675460 2675461 2675462 2675463 2675464 2717160 2717161 2717162 2717163 2717164 2717165 2717166 2794860 2800680 2800681 2800682 2869260 2869261 2869262 2869263 2869264 2869265 2920800 2920801 2920802 3033840 3033841 3033842 3033843 3033844 3075720 3075721 3075722 3075723 3075724 3075725 3102720 3102721 3102722 3102723 3102724 3102725 3102726 3102727 3102728 3102729 3135120 3151140 3206520 3206521 3206522 3206523 3206524 3206525 3368580 3368581 3368582 3368583 3368584 3368585 3391920 3391921 3391922 3391923 3666840 3666841 3666842 3666843 3666844 3666845 3666846 3765300] INFO 2025-06-26 14:23:18,382 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -5 seconds, d_end_time_diff: 2530 seconds INFO 2025-06-26 14:23:18,383 calibrate.py _geometric_depth_correction():3437 [1] biolume: Special QC for mission 2008.289.03: Setting corrected_depth to NaN for times after 2008-10-16T15:42:32.876702464 ERROR 2025-06-26 14:23:18,390 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 14:23:18,390 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no time coordinate - likely an incomplete lopc.nc file in missionlogs/2008.289.03 ERROR 2025-06-26 14:23:18,390 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2008.289.03 INFO 2025-06-26 14:23:18,445 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_cal.nc INFO 2025-06-26 14:23:38,633 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 14:23:38,642 process.py align():251 [1] Alignment steps for 2008.289.03 INFO 2025-06-26 14:23:38,683 align.py process_cal():139 [1] Processing dorado_2008.289.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2008.289.03 INFO 2025-06-26 14:23:38,768 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:23:38,777 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:23:38,989 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:23:39,002 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:23:39,205 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:23:39,217 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:23:39,339 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 14:23:39,339 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 14:23:39,419 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:23:39,431 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:23:39,628 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:39,639 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:23:39,812 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:39,822 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:23:39,996 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,006 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:23:40,189 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,199 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:40,377 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,387 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:40,562 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,571 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:40,747 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,756 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:40,927 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:40,937 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:41,109 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:41,119 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:41,289 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:41,299 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:41,475 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:41,485 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:41,657 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:41,667 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:41,841 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:41,850 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,023 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,033 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,207 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,217 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,388 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,398 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,575 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,584 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,758 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,769 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:42,942 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:42,951 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:43,125 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.289.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:23:43,134 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 14:23:43,339 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:23:43,467 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:23:43,597 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.73 INFO 2025-06-26 14:23:43,729 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 14:23:43,863 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.02 INFO 2025-06-26 14:23:43,904 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_align.nc INFO 2025-06-26 14:23:44,048 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 14:23:44,050 process.py resample():273 [1] Resampling steps for 2008.289.03 INFO 2025-06-26 14:23:44,051 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 14:23:44,082 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_align.nc mission netCDF file INFO 2025-06-26 14:23:44,090 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_align.nc mission netCDF file INFO 2025-06-26 14:23:44,092 resample.py get_mission_start_end():1145 [1] navigation: 2008-10-15T22:04:50.284188160 to 2008-10-16T16:24:43.553339136 (0 days 00:00:00.019998976 before mission_end) INFO 2025-06-26 14:23:44,095 resample.py get_mission_start_end():1145 [1] hs2 : 2008-10-15T22:04:24.255971072 to 2008-10-16T16:24:43.473344768 (0 days 00:00:00.099993344 before mission_end) INFO 2025-06-26 14:23:44,097 resample.py get_mission_start_end():1145 [1] ctd1 : 2008-10-15T22:05:18.542252032 to 2008-10-16T16:24:43.503342848 (0 days 00:00:00.069995264 before mission_end) INFO 2025-06-26 14:23:44,099 resample.py get_mission_start_end():1145 [1] ctd2 : 2008-10-15T22:04:46.134472192 to 2008-10-16T16:24:43.493343232 (0 days 00:00:00.079994880 before mission_end) INFO 2025-06-26 14:23:44,101 resample.py get_mission_start_end():1145 [1] isus : 2008-10-15T22:05:17.812302080 to 2008-10-16T16:24:43.573338112 (0 days 00:00:00 before mission_end) INFO 2025-06-26 14:23:44,103 resample.py get_mission_start_end():1145 [1] biolume : 2008-10-15T22:04:17.656388864 to 2008-10-16T16:24:42.563372800 (0 days 00:00:01.009965312 before mission_end) INFO 2025-06-26 14:23:44,104 resample.py get_mission_start_end():1145 [1] tailcone : 2008-10-15T22:04:21.976127232 to 2008-10-16T16:24:43.463345408 (0 days 00:00:00.109992704 before mission_end) INFO 2025-06-26 14:23:44,105 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_align.nc mission netCDF file INFO 2025-06-26 14:23:44,105 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:44,791 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:44,897 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,002 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,107 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,196 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,283 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,370 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,455 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,536 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,618 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,699 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,781 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,862 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:45,943 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,025 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,107 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,193 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,281 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,373 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,459 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,544 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,630 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,663 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,689 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,714 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,747 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:46,780 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 14:23:47,241 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_1S.nc INFO 2025-06-26 14:23:49,865 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 14:24:00,467 create_products.py gulper_odv():522 [1] Wrote 10 Gulper data lines to /data/auv_data/dorado/missionodvs/2008.289.03/dorado_2008.289.03_1S_Gulper.txt INFO 2025-06-26 14:24:00,467 process.py archive():337 [1] Archiving steps for 2008.289.03 INFO 2025-06-26 14:24:00,467 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03, BASE_PATH = /data/auv_data INFO 2025-06-26 14:24:00,469 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03 files to /Volumes/AUVCTD/surveys/2008/netcdf INFO 2025-06-26 14:24:00,469 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.289.03_1S.nc INFO 2025-06-26 14:24:00,515 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_1S.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:24:00,516 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.289.03_cal.nc INFO 2025-06-26 14:24:00,749 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_cal.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:24:00,750 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.289.03_align.nc INFO 2025-06-26 14:24:00,964 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_align.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 14:24:01,024 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,082 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,088 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,149 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,341 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,352 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,423 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,440 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,602 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,614 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008289/2008.289.03 done. INFO 2025-06-26 14:24:01,614 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 14:24:01,616 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2008/odv/dorado_2008.289.03_1S_Gulper.txt INFO 2025-06-26 14:24:01,621 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2008.289.03/dorado_2008.289.03_1S_Gulper.txt /Volumes/AUVCTD/surveys/2008/odv done. INFO 2025-06-26 14:24:01,621 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.289.03/dorado_2008.289.03_processing.log /Volumes/AUVCTD/surveys/2008/netcdf