[1] "2025-04-29 22:26:15 MDT" [1] "1410" "141113" "d317" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141113a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 22:26:19 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.767" [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] "10 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.767" [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] "12 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:26:20 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:26:20 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:26:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:26:43 MDT" [1] "reading in recalculated plot titles" [1] "Removed 12 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1424 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:26:47 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.946 co2off = 406.51 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 112 120 0.08026502 0.08653125 0.08424629 2 3.093244 387.7090 3 2 121 130 0.08723050 0.09349332 0.09105616 2 -26.145375 527.8747 5 2 408 417 0.28901898 0.29527795 0.29284409 3 -26.128148 529.8960 6 4 418 427 0.29597338 0.30223614 0.29980113 3 3.119859 380.1359 7 5 428 437 0.30293177 0.30919444 0.30815116 NA -7.905875 438.3706 8 3 438 447 0.30989005 0.31615278 0.31510854 3 -6.683070 462.5829 10 4 706 715 0.49780289 0.50407138 0.50163156 2 3.110320 374.4887 11 2 716 725 0.50476678 0.51102977 0.50859235 2 -26.130156 530.5555 13 2 1006 1015 0.70656600 0.71282922 0.71039445 3 -26.090680 526.8359 14 4 1016 1025 0.71352457 0.71978472 0.71735027 3 3.134320 384.3268 15 3 1026 1035 0.72048032 0.72674019 0.72569707 3 -6.664523 461.1141 17 4 1305 1314 0.91529751 0.92156907 0.91912731 2 3.163555 379.5528 18 2 1315 1324 0.92226444 0.92852341 0.92608944 2 -26.076023 527.7294 19 5 1325 1334 0.92922257 0.93548148 0.93443839 NA -7.869594 444.2097 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.172079 1.302163 1.021160e-03 -1.42198487 0.003632562 4.3053900 3 1.172377 1.302559 -3.129022e-03 -1.16363779 0.008923284 4.7506476 5 1.172199 1.302344 -7.214438e-04 1.17264649 0.002632417 5.8944716 6 1.172093 1.302248 2.794737e-03 -0.03655966 0.007867822 3.0620079 7 1.172237 1.302394 -6.489185e-03 2.05457733 0.004596194 2.7864762 8 1.172261 1.302422 9.670138e-04 -0.71049423 0.003018994 0.9674536 10 1.173636 1.303967 -3.079843e-05 -2.73664187 0.001453689 11.4794922 11 1.173625 1.304038 -4.000404e-03 1.85892786 0.011271062 13.6011241 13 1.175148 1.305798 -1.571123e-04 -0.32789262 0.002148878 2.6930518 14 1.175152 1.305797 8.891229e-04 -0.40417197 0.003580147 3.8701160 15 1.175222 1.305888 -6.202691e-04 3.30060032 0.001572269 4.6962264 17 1.175540 1.306476 -9.795065e-04 0.33938050 0.003320230 3.1055206 18 1.175528 1.306457 -3.935412e-03 -0.06284835 0.009848118 5.8596054 19 1.175320 1.306221 -7.051922e-03 -0.86206994 0.004993942 1.9625161 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 401.286 co2l1 = 0.944 co2l0 = 0" [1] "co2l0 = -196.31 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "72 out of 410 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "338 out of 1233 1-min values rejected as stack air" [1] "338 out of 1233 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"