[1] "2025-04-30 00:12:41 MDT" [1] "1505" "150614" "d165" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150614a.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] "2025-04-30 00:12:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.864, ave o2scale2 = 0.774" [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] "142 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.864, ave o2scale2 = 0.774" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "144 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:12:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:12:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:13:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:13:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 144 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1292 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:13:08 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 1.015 co2off = 470.26 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.71 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 190 199 0.1402584 0.1465181 0.1440837 2 -66.78798 362.6463 1.158016 3 2 200 209 0.1472136 0.1534723 0.1510384 2 -88.01764 481.9549 1.157957 5 2 479 485 0.3496632 0.3538357 0.3524450 3 -88.02408 474.7205 1.157561 6 4 486 492 0.3559225 0.3621852 0.3607941 3 -66.82041 368.2295 1.157692 7 3 493 502 0.3628807 0.3691435 0.3681001 3 -79.48420 468.9413 1.157885 9 4 739 745 0.5577419 0.5633095 0.5610822 2 -66.76577 361.1773 1.158953 10 2 746 750 0.5647003 0.5674864 0.5667897 2 -87.98385 471.0569 1.158571 15 2 980 989 0.7664613 0.7727211 0.7702868 3 -88.03425 476.2163 1.154823 16 4 990 999 0.7734167 0.7796761 0.7772417 3 -66.81759 365.5619 1.154916 17 3 1000 1009 0.7803716 0.7866308 0.7855876 3 -79.48047 469.6222 1.154920 19 4 1257 1266 0.9752112 0.9814745 0.9790385 2 -66.85910 364.3476 1.154209 20 2 1267 1276 0.9821699 0.9884291 0.9859949 2 -88.07453 481.7112 1.154234 jfcv2 co2slp o2slp co2sd o2sd 2 1.293494 3.461108e-03 2.12972971 0.009458907 5.500906 3 1.293432 -6.697284e-05 1.57539654 0.003645072 6.656692 5 1.293195 4.744121e-04 4.23770087 0.001935180 7.638032 6 1.293329 5.297989e-03 1.29260803 0.008770400 2.118977 7 1.293456 2.865910e-03 0.44360931 0.008249150 1.003659 9 1.294546 1.290270e-03 0.06278049 0.005174041 4.701640 10 1.294026 -3.427370e-03 -5.01665259 0.004223416 5.038687 15 1.289940 -5.438852e-04 2.43685777 0.001806795 7.151326 16 1.290012 3.283986e-03 1.93985654 0.009098478 6.017522 17 1.289987 1.717811e-03 2.06602183 0.006375788 2.936828 19 1.288716 4.015150e-04 2.48731254 0.002871492 6.603478 20 1.288765 -3.565128e-05 0.59412583 0.001894541 6.111100 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 473.931 co2l1 = 1.014 co2l0 = 2.268" [1] "co2l0 = -198.17 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "55 out of 378 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "323 out of 1128 1-min values rejected as stack air" [1] "287 out of 1088 Line 1 1-min values rejected as stack air" [1] "36 out of 40 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"