INFO 2025-06-26 06:07:55,236 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 06:07:55,236 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Processed fine on prey, a volume survey Re-portaled 8/21/05 - ctdToUse = ctd1 INFO 2025-06-26 06:07:55,236 process.py process_mission():449 [1] Processing AUVCTD mission 2004.315.02 by user docker_user on host 671049448ece INFO 2025-06-26 06:07:55,236 process.py download_process():165 [1] Download and processing steps for 2004.315.02 INFO 2025-06-26 06:07:55,236 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004315/2004.315.02 INFO 2025-06-26 06:07:55,236 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004315/2004.315.02 to /data/auv_data/dorado/missionlogs/2004.315.02 INFO 2025-06-26 06:07:56,465 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.315.02 INFO 2025-06-26 06:07:56,465 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/ctdDriver.log (1197371 bytes) INFO 2025-06-26 06:07:56,555 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/ctdDriver2.log (1197453 bytes) INFO 2025-06-26 06:07:56,645 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/gps.log (17492 bytes) INFO 2025-06-26 06:07:56,655 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/hydroscatlog.log (818174 bytes) INFO 2025-06-26 06:07:56,757 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/navigation.log (2645767 bytes) INFO 2025-06-26 06:07:56,959 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/isuslog.log (70101 bytes) INFO 2025-06-26 06:07:56,971 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/parosci.log (818870 bytes) INFO 2025-06-26 06:07:57,057 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/tailCone.log (818971 bytes) INFO 2025-06-26 06:07:57,162 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.315.02/biolume.log (934732 bytes) INFO 2025-06-26 06:07:57,253 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 06:07:57,303 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2004.315.02/biolume.log: [ 2 3 6 8 9 10] INFO 2025-06-26 06:07:57,307 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.84 seconds WARNING 2025-06-26 06:07:57,307 process.py download_process():196 [1] No lopc.bin file for 2004.315.02 INFO 2025-06-26 06:07:57,307 process.py calibrate():227 [1] Calibration steps for 2004.315.02 INFO 2025-06-26 06:07:57,382 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 06:07:57,384 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 06:07:58,040 calibrate.py _nudge_pos():1806 [1] 89: 0.190 -0.0006898 0.0000153 4485 14.95 -6.848 0.190 2004-11-10T21:37:41.954444160 INFO 2025-06-26 06:07:58,566 calibrate.py _nudge_pos():1806 [1] 143: 0.180 -0.0000279 -0.0000029 295 0.98 -4.217 -0.554 2004-11-10T21:39:33.956771328 INFO 2025-06-26 06:07:58,742 calibrate.py _nudge_pos():1806 [1] 162: 0.190 -0.0000294 0.0000157 89 0.29 -14.881 9.939 2004-11-10T21:40:09.954305408 INFO 2025-06-26 06:07:58,779 calibrate.py _nudge_pos():1806 [1] 166: 0.190 -0.0004068 0.0002013 3144 10.48 -5.762 3.560 2004-11-10T21:50:41.951010688 INFO 2025-06-26 06:07:59,244 calibrate.py _nudge_pos():1806 [1] 216: 0.190 -0.0025937 0.0011498 7915 26.38 -14.586 8.076 2004-11-10T22:17:53.959210368 INFO 2025-06-26 06:07:59,386 calibrate.py _nudge_pos():1862 [1] 210: - - - 4 0.01 - - INFO 2025-06-26 06:07:59,386 calibrate.py _nudge_pos():1868 [1] Points in final series = 16906 WARNING 2025-06-26 06:07:59,404 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 06:07:59,542 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:07:59,686 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 11 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:07:59,790 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 11 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:07:59,792 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.315.02/ctd1.nc INFO 2025-06-26 06:07:59,793 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 06:07:59,793 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 06:07:59,793 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 06:07:59,925 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:08:00,038 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:08:00,039 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.315.02/ctd2.nc INFO 2025-06-26 06:08:00,040 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 06:08:00,041 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 06:08:00,041 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 06:08:00,052 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 06:08:00,198 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 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 530 531 532 533 534 535 536 537 538 539 540 541 542 543 544 545 546 547 548 549 550 551 552 553 554 555 556 557 558 559 560 561 562 563 564 565 566 567 568 569 570 571 572 573 574 575 576 577 578 579 580 581 582 583 584 585 586 587 588 589 590 591 592 593 594 595 596 597 598 599 600 601 602 603 604 605 606 607 608 609 610 611 612 613 614 615 616 617 618 619 620 621 622 623 624 625 626 627 628 629 630 631 632 633 634 635 636 637 638 639 640 641 642 643 644 645 646 647 648 649 650 651 652 653 654 655 656 657 658 659 660 661 662 663 664 665 666 667 668 669 670 671 672 673 674 675 676 677 678 679 680 681 682 683 684 685 686 687 688 689 690 691 692 693 694 695 696 697 698 699 700 701 702 703 704 705 706 707 708 709 710 711 712 713 714 715 716 717 718 720 721 722 723 724 725 726 727 728 729 730 731 732 733 734 735 736 737 738 739 740 741 742 743 744 745 746 747 748 749 750 751 752 753 754 755 756 757 758 759 760 761 762 763 764 765 766 767 768 769 770 771 780 781 782 783 784 785 786 787 788 789 790 791 792 793 794 795 796 797 798 799 800 801 802 803 804 805 806 807 808 809 810 811 812 813 814 815 816 817 818 819 820 821 822 823 824 825 826 827 828 829 830 831 832 833 834 835 836 837 840 841 842 843 844 845 846 847 848 849 850 851 852 853 854 855 856] INFO 2025-06-26 06:08:00,232 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 06:08:00,293 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 06:08:00,293 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.315.02 ERROR 2025-06-26 06:08:00,294 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.315.02 INFO 2025-06-26 06:08:00,311 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_cal.nc INFO 2025-06-26 06:08:00,361 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 06:08:00,364 process.py align():251 [1] Alignment steps for 2004.315.02 INFO 2025-06-26 06:08:00,389 align.py process_cal():139 [1] Processing dorado_2004.315.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.315.02 INFO 2025-06-26 06:08:00,398 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:00,400 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:00,420 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:00,422 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:00,441 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:00,443 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:00,454 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 06:08:00,454 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 06:08:00,462 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:00,464 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:00,483 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:00,486 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,513 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:00,516 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,534 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:00,536 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,554 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,556 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,573 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,575 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,592 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,594 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,612 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,614 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,631 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,633 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,651 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,653 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,671 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,673 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,691 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,693 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,710 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,713 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,730 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,732 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,750 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,752 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,771 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,773 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,791 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,793 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,812 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,814 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,832 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,834 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,853 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,855 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,873 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.315.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:00,875 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:00,896 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:00,913 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:00,930 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:00,948 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 06:08:00,967 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:00,983 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_align.nc INFO 2025-06-26 06:08:01,031 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 06:08:01,033 process.py resample():273 [1] Resampling steps for 2004.315.02 INFO 2025-06-26 06:08:01,034 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 06:08:01,057 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_align.nc mission netCDF file INFO 2025-06-26 06:08:01,062 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_align.nc mission netCDF file INFO 2025-06-26 06:08:01,063 resample.py get_mission_start_end():1145 [1] navigation: 2004-11-10T21:21:38.760427520 to 2004-11-10T22:18:08.958182784 (0 days 00:00:00.049996672 before mission_end) INFO 2025-06-26 06:08:01,064 resample.py get_mission_start_end():1145 [1] hs2 : 2004-11-10T21:21:22.641531648 to 2004-11-10T22:18:08.938184320 (0 days 00:00:00.069995136 before mission_end) INFO 2025-06-26 06:08:01,066 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-11-10T21:21:29.531059712 to 2004-11-10T22:18:08.948183552 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 06:08:01,067 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-11-10T21:21:29.291076224 to 2004-11-10T22:18:08.958182784 (0 days 00:00:00.049996672 before mission_end) INFO 2025-06-26 06:08:01,068 resample.py get_mission_start_end():1145 [1] isus : 2004-11-10T21:22:33.706663424 to 2004-11-10T22:18:08.138239104 (0 days 00:00:00.869940352 before mission_end) INFO 2025-06-26 06:08:01,069 resample.py get_mission_start_end():1145 [1] biolume : 2004-11-10T21:21:16.661906944 to 2004-11-10T22:18:08.328191744 (0 days 00:00:00.679987712 before mission_end) INFO 2025-06-26 06:08:01,071 resample.py get_mission_start_end():1145 [1] tailcone : 2004-11-10T21:21:18.631806336 to 2004-11-10T22:18:09.008179456 (0 days 00:00:00 before mission_end) INFO 2025-06-26 06:08:01,071 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_align.nc mission netCDF file INFO 2025-06-26 06:08:01,071 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,134 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,147 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,160 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,173 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,186 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,199 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,211 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,223 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,234 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,244 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,256 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,268 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,280 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,292 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,303 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,314 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,327 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,340 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,352 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,364 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,375 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,387 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,397 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,406 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,415 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,424 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,438 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:01,551 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_1S.nc INFO 2025-06-26 06:08:02,325 create_products.py gulper_odv():401 [1] No gulper times found for 2004.315.02 INFO 2025-06-26 06:08:02,325 process.py archive():337 [1] Archiving steps for 2004.315.02 INFO 2025-06-26 06:08:02,325 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02, BASE_PATH = /data/auv_data INFO 2025-06-26 06:08:02,325 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 06:08:02,327 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.315.02_1S.nc INFO 2025-06-26 06:08:02,337 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:02,340 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.315.02_cal.nc INFO 2025-06-26 06:08:02,363 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:02,363 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.315.02_align.nc INFO 2025-06-26 06:08:02,385 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:02,396 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,405 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,410 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,419 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,433 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,437 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,446 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,455 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,471 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004315/2004.315.02 done. INFO 2025-06-26 06:08:02,471 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 06:08:02,472 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.315.02/dorado_2004.315.02_processing.log /Volumes/AUVCTD/surveys/2004/netcdf