[1] "2025-04-29 20:40:17 MDT" [1] "1402" "140224" "d055" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140224a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:40:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.731" [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] "60 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.731" [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] "60 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:40:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:40:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:40:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:40:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 60 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1376 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:40:45 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.422 co2off = 390.61 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.61 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 171 180 0.1203371 0.1265972 0.1241627 3 -5.963836 305.0407 1.254224 3 4 181 190 0.1272928 0.1335521 0.1311179 3 59.772797 162.2691 1.254072 4 5 191 200 0.1342477 0.1405075 0.1394639 NA 32.818375 217.8383 1.254087 5 3 201 210 0.1412029 0.1474620 0.1464190 3 37.197320 239.8584 1.254090 7 4 471 480 0.3290454 0.3353090 0.3328747 2 59.708719 157.1607 1.253098 8 2 481 490 0.3360045 0.3422640 0.3398300 2 -5.986805 305.6817 1.253231 10 2 767 776 0.5377257 0.5439854 0.5415510 3 -5.945023 303.2105 1.248893 11 4 777 786 0.5446806 0.5509398 0.5485059 3 59.624820 161.3015 1.248392 12 3 787 796 0.5516354 0.5578948 0.5568518 3 37.132953 244.8141 1.248284 14 4 1049 1052 0.7478116 0.7519884 0.7516406 2 59.359596 165.5451 1.240258 15 2 1053 1058 0.7554653 0.7596393 0.7585953 2 -5.198345 303.2703 1.240756 16 5 1059 1066 0.7603346 0.7665938 0.7662460 NA 32.722750 221.2976 1.240285 18 2 1322 1331 0.9550895 0.9613529 0.9589176 3 -4.845695 299.8145 1.231281 19 4 1332 1340 0.9620483 0.9683078 0.9661216 3 59.183383 161.2070 1.231218 20 3 1341 1350 0.9690034 0.9752622 0.9742191 3 37.220195 242.2561 1.230875 jfcv2 co2slp o2slp co2sd o2sd 2 1.376800 0.0025501364 1.870998e+00 0.007318712 7.6713859 3 1.376667 0.0024929524 1.019453e+00 0.015665225 3.0423033 4 1.376684 -0.0401579713 -1.904052e+00 0.028461048 2.7304679 5 1.376712 -0.0037377275 4.434426e+00 0.011320140 6.3909666 7 1.375399 -0.0011707455 1.514126e-01 0.007249846 1.7870939 8 1.375549 -0.0079855727 2.590420e+00 0.020174142 6.8650249 10 1.370815 0.0024879404 2.421125e+00 0.013256524 6.1342542 11 1.370297 0.0030383009 2.022815e+00 0.017331827 5.9444564 12 1.370174 -0.0010638749 -6.388669e-01 0.005116036 0.8819346 14 1.361619 -0.0091768927 2.999589e-14 0.006499858 0.0000000 15 1.362156 0.0006254916 9.714745e-01 0.001064416 1.3762532 16 1.361583 -0.3776049249 3.243350e-14 0.267463140 0.0000000 18 1.351940 -0.0014431881 2.906718e+00 0.006268405 8.6566910 19 1.351834 0.0118180590 2.515368e+00 0.031458439 6.4422352 20 1.351510 0.0033083431 2.385828e+00 0.011549700 3.1189631 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.017 co2l1 = 0.424 co2l0 = 0.026" [1] "co2l0 = -149.99 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "58 out of 120 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "62 out of 1182 1-min values rejected as stack air" [1] "62 out of 1182 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"