[1] "2025-04-30 03:11:30 MDT" [1] "1706" "170730" "d211" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170730a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 80220 63 [1] 80220 [1] 80220 [1] "testing skipping spike filter" [1] 80220 [1] 80220 [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 03:11:33 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.881, ave o2scale2 = 0.957" [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] "49 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.881, ave o2scale2 = 0.957" [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] "49 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:11:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:11:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:11:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:11:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 49 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1287 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:11:55 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 = 4.459 co2off = 424.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.08 minutes" [1] "Average Cal: 8.02 minutes" [1] "Shortest Cal: 7.17 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 117 124 0.1023019 0.1078371 0.1058672 2 -2.697510 170.0994 1.146982 3 2 125 132 0.1086247 0.1141469 0.1121706 2 -5.436719 327.9196 1.147135 4 5 133 140 0.1149346 0.1204568 0.1200630 NA -3.732937 205.2064 1.146769 6 2 378 385 0.3106712 0.3161934 0.3142214 3 -5.446094 329.1695 1.144419 7 4 386 393 0.3169810 0.3225032 0.3205319 3 -2.704812 172.8439 1.144302 8 3 394 401 0.3232908 0.3288217 0.3284279 3 -6.256885 314.7330 1.144202 10 4 635 643 0.5185749 0.5242755 0.5221327 2 -2.732616 168.3645 1.140056 11 2 644 652 0.5249870 0.5306758 0.5285424 2 -5.475571 331.8742 1.139914 13 2 919 927 0.7264635 0.7321543 0.7300201 3 -5.570411 347.3885 1.128699 14 4 928 936 0.7328656 0.7385655 0.7364323 3 -2.824107 163.3212 1.128236 16 3 946 954 0.7456872 0.7513762 0.7506653 3 -6.408321 329.0507 1.127156 18 4 1201 1204 0.9350330 0.9400111 0.9396554 2 -2.934375 132.2906 1.114392 19 2 1205 1213 0.9407223 0.9464268 0.9442866 2 -5.704839 336.1281 1.114331 jfcv2 co2slp o2slp co2sd o2sd 2 1.055432 -4.104466e-04 -3.798222e+00 0.0010250127 8.596624 3 1.055627 1.250400e-03 3.990556e+00 0.0030173327 12.738412 4 1.055186 5.962309e-02 -3.487066e+00 0.0478180961 2.796650 6 1.052940 1.301842e-03 5.508906e-01 0.0028415857 3.113457 7 1.052777 8.134010e-04 -9.980877e-01 0.0019839197 3.954118 8 1.052630 -4.016597e-04 3.569180e+00 0.0015539349 2.862610 10 1.048674 -6.639714e-05 -2.829232e-01 0.0015294116 2.045340 11 1.048491 1.630399e-03 1.266159e+00 0.0036487064 6.247214 13 1.038806 -1.198384e-04 -7.323646e-01 0.0010083358 9.751389 14 1.038285 -1.133547e-03 -1.913915e+00 0.0028749353 13.561183 16 1.037279 -1.403787e-03 7.136068e+00 0.0032055105 7.346403 18 1.026824 -1.708706e-03 1.142005e-14 0.0012374369 0.000000 19 1.026772 2.732296e-04 3.607311e+00 0.0009255187 20.705642 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 421.327 co2l1 = 4.423 co2l0 = 0.397" [1] "co2l0 = -159.6 co2l1 = 0.211" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "5 out of 270 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "265 out of 1120 1-min values rejected as stack air" [1] "265 out of 1120 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"