[1] "2025-04-29 18:51:52 MDT" [1] "1306" "130604" "d155" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130604a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 18:51:56 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.719" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "17 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.719" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "17 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:51:56 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:51:56 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:52:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:52:21 MDT" [1] "reading in recalculated plot titles" [1] "Removed 17 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:52:41 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.8" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.279 co2off = 387.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 164 173 0.1168912 0.1231507 0.1207167 3 -36.24080 246.02751 3 4 174 183 0.1238461 0.1301053 0.1276713 3 37.92183 155.90250 4 3 184 193 0.1308013 0.1370603 0.1360173 3 76.68905 86.02960 6 4 464 473 0.3255558 0.3318148 0.3293809 2 38.27002 158.24695 7 2 474 483 0.3325104 0.3387699 0.3363359 2 -35.88476 245.83171 8 5 484 493 0.3394654 0.3457245 0.3446814 NA 25.49559 137.21981 10 2 760 769 0.5341992 0.5404585 0.5380246 3 -36.11527 241.20010 11 4 770 779 0.5411539 0.5474133 0.5449791 3 38.21663 157.78003 12 3 780 789 0.5481088 0.5543681 0.5533247 3 76.98307 90.16904 14 4 1051 1059 0.7428398 0.7490992 0.7468138 2 38.26559 157.64325 15 2 1060 1069 0.7497946 0.7560534 0.7536195 2 -35.84301 243.78934 17 2 1349 1358 0.9515201 0.9577797 0.9553454 3 -35.69888 244.69606 18 4 1359 1368 0.9584751 0.9647347 0.9623003 3 38.34182 156.30706 19 5 1369 1378 0.9654300 0.9716890 0.9706460 NA 25.57169 136.98105 20 3 1379 1388 0.9723845 0.9786440 0.9776010 3 77.06388 88.99736 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.296886 1.389829 -0.0174239851 0.4480254 0.04650618 3.7229829 3 1.296826 1.389779 -0.0114940165 -0.4238611 0.03360757 3.4412220 4 1.296763 1.389722 0.0011216767 0.1295098 0.01231961 0.9115283 6 1.298135 1.391610 -0.0075341285 1.3657945 0.02017791 4.0836808 7 1.297938 1.391409 -0.0196273958 -0.2555865 0.04972578 1.9829510 8 1.297697 1.391167 -0.0733305596 0.4584563 0.05192815 1.0805526 10 1.299009 1.392570 -0.0015010592 -1.9599655 0.03370036 8.3742217 11 1.299137 1.392676 0.0155769813 0.3441555 0.04055881 3.0841148 12 1.298920 1.392472 -0.0010976292 -1.8650812 0.02410798 2.8582031 14 1.299551 1.393699 0.0083258809 0.2119377 0.03318900 3.6965276 15 1.299662 1.393784 0.0197814450 -0.7256306 0.05120426 2.1356815 17 1.298706 1.393020 -0.0220805094 -0.1348383 0.05924742 3.8549432 18 1.298687 1.392997 -0.0009325466 0.2368290 0.01715428 2.2464082 19 1.298753 1.393021 -0.0842731699 -1.4861015 0.05966213 1.9756230 20 1.298609 1.392852 0.0034984314 -2.1306959 0.01066884 2.9459157 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.294 co2l1 = 0.277 co2l0 = 0.193" [1] "co2l0 = -132.73 co2l1 = 0.231" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "45 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "90 out of 1212 1-min values rejected as stack air" [1] "90 out of 1212 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"