[1] "2025-04-29 21:43:55 MDT" [1] "1406" "140801" "d213" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140801a.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 21:43:59 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.74" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.74" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:44:00 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:44:00 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:44:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:44:21 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:44:26 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 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 386.07 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,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 147 156 0.1020754 0.1083389 0.1059030 2 38.68085 138.0330 1.224155 3 2 157 166 0.1090345 0.1152974 0.1128612 2 -19.73830 280.6141 1.224326 4 5 167 176 0.1159930 0.1222558 0.1212109 NA 16.50197 194.5477 1.224359 6 2 447 456 0.3108252 0.3170847 0.3146502 3 -19.79803 278.2815 1.221892 7 4 457 466 0.3177810 0.3240400 0.3216059 3 38.61306 140.4764 1.221911 8 3 467 476 0.3247352 0.3310043 0.3299600 3 18.80892 215.7210 1.221476 10 4 747 756 0.5196169 0.5258797 0.5234426 2 38.56662 135.3227 1.218574 11 2 757 766 0.5265752 0.5328380 0.5304017 2 -19.85062 283.2098 1.218513 13 2 1046 1055 0.7284537 0.7347170 0.7322804 3 -19.95811 284.5184 1.213056 14 4 1056 1065 0.7354124 0.7416755 0.7392399 3 38.42493 143.6910 1.212849 15 5 1066 1075 0.7423710 0.7486343 0.7475909 NA 16.22259 198.2449 1.212741 16 3 1076 1085 0.7493297 0.7555926 0.7545492 3 18.60253 227.4585 1.212743 18 4 1346 1355 0.9372501 0.9435137 0.9410781 2 38.35846 139.2038 1.209355 19 2 1356 1365 0.9442090 0.9504687 0.9480343 2 -20.06530 283.3777 1.209312 jfcv2 co2slp o2slp co2sd o2sd 2 1.359236 0.003292501 -1.01152053 0.008499996 2.8201929 3 1.359420 -0.002004652 0.53950141 0.008749984 2.1995713 4 1.359463 -0.012666389 -0.03489138 0.008971417 0.5162917 6 1.356737 -0.004047335 -1.55991482 0.011269131 4.5930816 7 1.356750 0.001894434 0.01852061 0.011897254 3.3750243 8 1.356278 0.002295424 -0.78391768 0.006813831 1.0652699 10 1.353122 0.001952416 0.03431103 0.006133962 2.8426157 11 1.353055 -0.006318698 0.68043491 0.017512241 2.4753347 13 1.345856 -0.001873340 0.25808619 0.005479441 3.2080703 14 1.345636 0.004196175 -2.41923018 0.012832647 8.3293995 15 1.345561 -0.014413478 -0.42688391 0.010208854 4.7338712 16 1.345586 -0.001416084 -0.25618702 0.005535801 3.3693198 18 1.342005 -0.003940173 1.64898457 0.010325665 4.4202351 19 1.341970 -0.006900130 -0.17647158 0.021317708 4.1849604 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.034 co2l1 = 0.473 co2l0 = 0.089" [1] "co2l0 = -144.86 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "112 out of 740 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "628 out of 1243 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "628 out of 1243 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"