[1] "2025-04-29 21:26:02 MDT" [1] "1406" "140702" "d183" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140702a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85260 63 [1] 85260 [1] 85260 [1] "testing skipping spike filter" [1] 85260 [1] 85260 [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 21:26:06 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.752" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.752" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:26:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:26:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:26:29 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:26:30 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with LiCO2A spikes in them" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:26:34 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.469 co2off = 386.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.29 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 11.94 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 52 61 0.03654569 0.04280480 0.04037076 2 48.47164 135.0194 3 2 62 71 0.04350020 0.04976042 0.04732587 2 -10.56223 283.0052 4 5 72 81 0.05045587 0.05671551 0.05567217 NA 26.67637 193.3230 6 2 347 355 0.24761716 0.25590981 0.25277533 3 -10.80933 281.2222 7 4 356 362 0.25669170 0.26429861 0.26197083 3 48.18846 132.3571 8 3 363 371 0.26499421 0.27056615 0.26986946 3 28.17550 212.8177 10 4 638 647 0.45637153 0.46263437 0.46019782 2 47.98058 137.8462 11 2 648 657 0.46332986 0.46959265 0.46715683 2 -11.01931 274.0042 13 2 938 947 0.66514251 0.67140625 0.66897113 3 -11.16328 280.3882 14 4 948 957 0.67210185 0.67836499 0.67593051 3 47.78977 132.2327 15 5 958 967 0.67906383 0.68532714 0.68428187 NA 25.74097 198.2204 16 3 968 977 0.68602254 0.69228547 0.69124191 3 27.75410 212.7017 18 4 1238 1247 0.87390512 0.88016785 0.87773390 2 47.52652 129.6684 19 2 1248 1257 0.88086418 0.88713047 0.88469314 2 -11.43434 274.3587 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.199617 1.330831 -9.672347e-04 0.6906160 0.005793098 4.284836 3 1.199912 1.331218 -4.272070e-03 -0.5254867 0.014723908 6.779027 4 1.199945 1.331287 -9.731753e-03 13.7673725 0.006894291 18.852922 6 1.199331 1.330506 5.293659e-05 0.4410208 0.006048385 3.994932 7 1.199200 1.330333 -7.173747e-04 -2.6879542 0.004961100 10.918369 8 1.199186 1.330224 -7.973634e-03 0.5503543 0.017822877 1.078334 10 1.198783 1.330243 -4.638758e-03 0.3490837 0.011575536 5.607147 11 1.198676 1.330282 -3.908190e-03 1.1398522 0.013855359 17.470165 13 1.200923 1.332325 7.082659e-04 -0.2485808 0.007071778 3.425278 14 1.201108 1.332598 4.404710e-03 1.1686071 0.015744753 7.586496 15 1.200909 1.332371 3.804890e-03 2.0547505 0.002695845 3.121472 16 1.200912 1.332338 -3.734275e-03 2.0346477 0.011526074 2.763854 18 1.198476 1.329511 -1.157523e-03 -0.1893822 0.005082769 2.093977 19 1.198330 1.329346 -7.166943e-03 -0.1672832 0.018622211 8.298522 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.783 co2l1 = 0.468 co2l0 = 0.054" [1] "co2l0 = -142.97 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "23 out of 35 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "12 out of 1231 1-min values rejected as stack air" [1] "12 out of 1231 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"