[1] "2025-04-30 03:09:34 MDT" [1] "1706" "170726" "d207" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170726a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 03:09:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.959" [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] "277 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.959" [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] "277 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:09:39 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:09:39 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:09:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:10:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 277 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1125 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:10:02 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 = 4.453 co2off = 424.17 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.03 minutes" [1] "Shortest Cal: 2.06 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 3 4 [3,] 5 7 [4,] 8 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 138 144 0.1014509 0.1057193 0.1042963 1 -5.436325 344.0643 1.151686 4 5 148 151 0.1171104 0.1199566 0.1279720 NA -3.727673 215.3088 1.150387 6 4 294 298 0.3094133 0.3136927 0.3125053 2 -2.785021 167.1289 1.140374 7 2 299 305 0.3158272 0.3208067 0.3192416 2 -5.546880 344.3925 1.139750 9 2 492 497 0.5174058 0.5231070 0.5213235 3 -5.573738 350.8417 1.136598 10 4 498 506 0.5238184 0.5295109 0.5273759 3 -2.832670 184.0524 1.136385 11 3 507 515 0.5302227 0.5359231 0.5352115 3 -6.391143 320.5257 1.136267 13 4 749 756 0.7254174 0.7311157 0.7289759 2 -2.820391 184.7039 1.133961 14 2 757 765 0.7318314 0.7375224 0.7353882 2 -5.564357 341.5284 1.133958 18 4 1041 1049 0.9398517 0.9455567 0.9434206 2 -2.813107 179.8040 1.132952 19 3 1050 1058 0.9462687 0.9519724 0.9512533 2 -6.379714 328.6253 1.132603 jfcv2 co2slp o2slp co2sd o2sd 2 1.052190 -0.0009761681 7.7941904 0.0018234583 13.0062754 4 1.051023 0.0023462442 -0.4798714 0.0529420883 8.6034739 6 1.042870 -0.0014245011 -5.9851933 0.0030836852 13.1682544 7 1.042196 -0.0004379977 3.2921534 0.0009119623 9.0013355 9 1.040479 -0.0011552761 -3.0215276 0.0029291704 7.6181724 10 1.040331 -0.0003246090 1.2527149 0.0014850445 6.5079535 11 1.040346 -0.0006427275 7.1663325 0.0026975863 8.8208222 13 1.039097 0.0009776666 -0.8195271 0.0029108837 7.5530581 14 1.039000 0.0007560978 0.0376308 0.0018348884 5.3694934 18 1.039278 -0.0012881628 -1.4375460 0.0031626306 4.3596048 19 1.039162 -0.0015764788 0.1620254 0.0039170862 0.7812125 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 421.348 co2l1 = 4.419 co2l0 = 0.419" [1] "co2l0 = -163.42 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "37 out of 310 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "273 out of 956 1-min values rejected as stack air" [1] "273 out of 956 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] "making html"