[1] "2025-04-29 17:10:20 MDT" [1] "1211" "121026" "d300" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121026a.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 17:10:24 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.785, ave o2scale2 = 0.797" [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] "206 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.785, ave o2scale2 = 0.797" [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] "209 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:10:24 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:10:24 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:10:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:10:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 209 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1227 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:10:55 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -449.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.444 co2off = 397.07 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.3 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 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 3 4 104 110 0.09060851 0.09687144 0.0954800 2 52.95178 -38.33917 4 2 111 120 0.09756690 0.10383058 0.1013951 2 -16.51077 121.70234 7 2 351 359 0.29935295 0.30492011 0.3028330 3 -16.49921 119.64410 8 4 360 367 0.30770480 0.31257332 0.3108349 3 53.14173 -37.19743 10 3 376 383 0.32161826 0.32648669 0.3261390 3 29.27836 33.08864 13 4 607 614 0.50813038 0.51299893 0.5112599 2 53.39527 -40.18480 14 2 615 623 0.51578391 0.52135185 0.5192623 2 -16.71029 120.86020 17 2 875 884 0.71688892 0.72315171 0.7207172 3 -16.66687 119.92472 18 4 885 891 0.72384722 0.73011001 0.7278846 3 53.50645 -41.41791 19 3 892 901 0.73080909 0.73707176 0.7360259 3 29.44798 32.78958 22 4 1137 1143 0.92561748 0.93188027 0.9304894 2 53.71322 -40.67056 23 2 1144 1153 0.93257561 0.93883825 0.9364039 2 -16.68965 121.40103 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.269007 1.248331 -0.0021538486 0.07486975 0.003636905 1.1698017 4 1.269251 1.248591 -0.0014968008 0.82212617 0.010298878 3.8080648 7 1.272559 1.252030 0.0063443705 0.82201813 0.016518411 2.1406365 8 1.272620 1.252133 0.0027241881 0.25139018 0.010860167 2.0503632 10 1.272838 1.252334 -0.0029366485 0.61156839 0.005896293 0.4329847 13 1.275937 1.255655 -0.0009306379 1.22642092 0.006567518 2.7060393 14 1.276328 1.256063 0.0267056511 1.09619760 0.058555761 2.6692897 17 1.277656 1.257412 -0.0016806139 0.65042127 0.006777886 2.5514790 18 1.277604 1.257367 0.0046502846 -0.31080708 0.016470245 1.2089940 19 1.277690 1.257476 0.0019883227 -1.21881276 0.010756484 2.0283751 22 1.278562 1.258397 -0.0045084856 -1.12777558 0.008653000 1.9571165 23 1.278821 1.258661 0.0011588460 -0.44891673 0.010632610 2.0474166 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.707 co2l1 = 0.444 co2l0 = 0.142" [1] "co2l0 = -103.69 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "54 out of 225 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "171 out of 1047 1-min values rejected as stack air" [1] "56 out of 928 Line 1 1-min values rejected as stack air" [1] "115 out of 119 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"