[1] "2025-04-30 03:06:53 MDT" [1] "1706" "170721" "d202" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170721a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 79267 63 [1] 79267 [1] 79267 [1] "testing skipping spike filter" [1] 79267 [1] 79267 [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 03:06:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.941" [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] "26 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.941" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "27 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:06:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:06:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:07:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:07:17 MDT" [1] "reading in recalculated plot titles" [1] "Removed 27 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1291 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:07:19 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.544 co2off = 420.25 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.19 minutes" [1] "Average Cal: 8.13 minutes" [1] "Shortest Cal: 7.19 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 74 80 0.05499378 0.05998631 0.05855764 3 -5.444567 345.8907 3 4 81 89 0.06069800 0.06638883 0.06425444 3 -2.722152 184.4565 5 3 99 107 0.07351166 0.07920162 0.07849022 3 -6.213000 320.5702 7 4 361 369 0.26217214 0.26786296 0.26572843 2 -2.612723 182.0795 8 2 370 378 0.26857937 0.27427020 0.27213702 2 -5.309393 348.2896 10 2 651 659 0.47003979 0.47573027 0.47359605 3 -5.314688 343.4542 11 4 660 668 0.47644172 0.48214213 0.48000577 3 -2.628357 179.8827 12 3 669 677 0.48285362 0.48854375 0.48783251 3 -6.121679 332.9545 14 4 935 942 0.67789398 0.68360284 0.68158635 2 -2.481784 183.8129 15 2 943 951 0.68431435 0.69001583 0.68787528 2 -5.182455 343.6469 18 2 1210 1218 0.94192694 0.94761751 0.94548334 3 -5.608241 341.3926 19 4 1219 1227 0.94832882 0.95402561 0.95188920 3 -2.905875 183.2431 20 3 1228 1236 0.95473686 0.96042694 0.95971587 3 -6.408616 323.4018 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.184818 1.059486 1.575387e-03 -4.570716985 0.002603873 8.066756 3 1.184834 1.059615 3.183541e-03 -2.402305763 0.007118131 10.750344 5 1.185072 1.059847 -1.310188e-05 -0.063962026 0.001454161 1.155558 7 1.189322 1.063488 6.884572e-04 0.280209198 0.001942821 2.101124 8 1.189516 1.063743 9.504345e-04 0.003250779 0.002112930 4.970127 10 1.190415 1.064432 -2.211812e-03 1.646705128 0.005141994 5.180333 11 1.190240 1.064362 -2.125188e-05 -1.310111269 0.001350499 3.364084 12 1.190477 1.064440 7.845604e-05 4.382486843 0.001585427 5.269057 14 1.188670 1.062858 1.631537e-04 1.582074836 0.001229853 5.424342 15 1.188718 1.062936 4.672694e-04 1.371085145 0.001532085 5.911016 18 1.187532 1.063032 3.486784e-04 2.926070029 0.001467721 13.337416 19 1.187487 1.062979 -5.046539e-04 3.081137003 0.001287460 7.216139 20 1.187539 1.063344 -1.069994e-03 -2.571631314 0.002555231 4.354959 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 421.072 co2l1 = 4.506 co2l0 = 0.147" [1] "co2l0 = -166.15 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "79 out of 467 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "388 out of 1102 1-min values rejected as stack air" [1] "388 out of 1102 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"