[1] "2025-04-29 22:19:41 MDT" [1] "1410" "141102" "d306" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141102a.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 22:19:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.761" [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] "74 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.761" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "76 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:19:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:19:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:20:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:20:07 MDT" [1] "reading in recalculated plot titles" [1] "Removed 76 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1360 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:20:11 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 395.48 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 8.4 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 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,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 37 45 0.02953883 0.03510532 0.03301881 2 3.977277 382.1801 3 2 46 54 0.03580093 0.04136811 0.03927925 2 -25.267964 529.3239 5 2 333 341 0.23824436 0.24381947 0.24172863 3 -25.344107 526.8428 6 4 342 351 0.24451505 0.25077428 0.24834009 3 3.897820 381.5083 7 3 352 361 0.25146988 0.25772914 0.25668579 3 -5.909844 463.0057 9 4 631 639 0.44703241 0.45260038 0.45051185 2 3.850393 382.1544 10 2 640 648 0.45329572 0.45886357 0.45677554 2 -25.413884 530.3623 13 2 924 932 0.65575842 0.66132627 0.65923727 3 -25.455580 524.3614 14 4 933 942 0.66202167 0.66828125 0.66584670 3 3.799094 383.5344 15 3 943 951 0.66897685 0.67454057 0.67384501 3 -6.002188 460.3180 17 4 1220 1229 0.86380677 0.87006635 0.86763221 2 3.706422 377.0340 18 2 1230 1239 0.87076181 0.87702474 0.87459021 2 -25.581023 523.7664 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.191655 1.323120 2.786334e-04 -0.19863925 0.001150666 1.403732 3 1.191719 1.323037 -2.143705e-03 -1.29082117 0.006150125 4.066588 5 1.188028 1.318979 6.219140e-04 -0.82417510 0.002604012 5.119747 6 1.187880 1.318708 6.318343e-05 0.24438118 0.003489691 2.038107 7 1.188073 1.318911 1.858478e-04 -1.24010044 0.004695529 2.124730 9 1.185037 1.315541 -1.748456e-05 1.60710135 0.003263935 4.147091 10 1.185058 1.315414 -6.952110e-03 0.30852873 0.016392064 1.549306 13 1.184191 1.314625 -2.668528e-05 0.09783354 0.000577028 1.309139 14 1.184102 1.314423 2.932716e-03 -0.33565483 0.008404532 1.881901 15 1.184349 1.314513 -2.521027e-03 -2.55528997 0.006374591 2.636188 17 1.176246 1.305792 -1.393677e-03 -1.84994218 0.003508082 6.393876 18 1.175238 1.304637 -4.509419e-03 0.43664019 0.012205593 2.860967 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.606 co2l1 = 0.944 co2l0 = 0.001" [1] "co2l0 = -197.17 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "24 out of 25 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "1 out of 1186 1-min values rejected as stack air" [1] "1 out of 1186 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"