[1] "2025-04-29 21:24:54 MDT" [1] "1406" "140630" "d181" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140630a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85140 63 [1] 85140 [1] 85140 [1] "testing skipping spike filter" [1] 85140 [1] 85140 [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 21:24:58 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.822, ave o2scale2 = 0.742" [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 = 0.822, ave o2scale2 = 0.742" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:24:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:24:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:25:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:25:20 MDT" [1] "reading in recalculated plot titles" [1] "TEMP: 1417 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:25:23 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 = -476.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.4" [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 = 0.467 co2off = 393.78 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.12 minutes" [1] "Average Cal: 9.12 minutes" [1] "Shortest Cal: 9.1 minutes" [1] "Longest Cal: 9.13 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 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 225 234 0.1577303 0.1640650 0.1615984 3 -9.070883 281.7872 1.219179 3 4 235 244 0.1647686 0.1711038 0.1686436 3 50.029445 133.6019 1.219340 4 5 245 254 0.1718065 0.1781363 0.1770769 NA 28.252719 187.1284 1.219427 5 3 255 264 0.1788395 0.1851574 0.1841042 3 30.042477 220.4957 1.219679 7 4 522 531 0.3665933 0.3729190 0.3704601 2 49.932367 128.6073 1.220606 8 2 532 541 0.3736221 0.3799628 0.3774957 2 -9.125844 281.8137 1.220769 11 2 819 828 0.5756795 0.5820090 0.5795473 3 -9.282867 277.8507 1.215888 12 4 829 838 0.5827124 0.5890433 0.5865812 3 49.758641 153.7006 1.215272 13 3 839 848 0.5897468 0.5960772 0.5950212 3 29.724188 218.2578 1.214740 16 4 1111 1120 0.7841749 0.7905056 0.7880440 2 49.747641 137.5722 1.210673 17 2 1121 1130 0.7912092 0.7975365 0.7950760 2 -9.360477 277.9438 1.210760 18 5 1131 1140 0.7982397 0.8045741 0.8035192 NA 27.750375 199.3995 1.210204 20 2 1408 1417 0.9931262 0.9994573 0.9969953 1 -9.503234 279.4285 1.209491 jfcv2 co2slp o2slp co2sd o2sd 2 1.352000 0.0023378091 2.3037596 0.007275389 7.326525 3 1.352260 0.0043152720 -0.1645666 0.015326922 3.580083 4 1.352376 -0.0144990128 2.8048521 0.010385631 5.089753 5 1.352690 0.0003748354 9.9927690 0.008465129 14.005006 7 1.353558 0.0020453161 0.5540463 0.007110216 10.315148 8 1.353546 -0.0003897495 0.6519909 0.010394399 7.029064 11 1.347864 -0.0050595208 -0.7693911 0.015534180 7.555706 12 1.347264 0.0042301381 -3.0489425 0.015378838 20.231850 13 1.346545 0.0025329897 -6.9104591 0.007981284 9.863637 16 1.342359 -0.0076672019 -1.1842963 0.020982980 6.459081 17 1.342547 -0.0064360619 1.7579832 0.017666837 6.814907 18 1.341943 -0.0167894325 -3.0451534 0.012020815 7.513579 20 1.342668 -0.0051083056 10.8968616 0.012960696 28.948577 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.963 co2l1 = 0.467 co2l0 = 0.039" [1] "co2l0 = -145.21 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "153 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "122 out of 1236 1-min values rejected as stack air" [1] "61 out of 985 Line 1 1-min values rejected as stack air" [1] "61 out of 251 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"