[1] "2025-04-29 21:08:41 MDT" [1] "1404" "140427" "d117" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140427a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 21:08:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.746" [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] "80 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.746" [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] "80 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:08:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:08:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:08:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:09:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 80 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1356 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:09:03 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 = -476.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.1" [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 = 0.416 co2off = 377.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.78 minutes" [1] "Shortest Cal: 3 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 jfcv1 2 4 136 142 0.1127141 0.1175822 0.1157740 2 75.025624 130.4054 1.215474 3 2 143 152 0.1196685 0.1259279 0.1234937 2 8.843937 274.4859 1.215659 5 2 428 436 0.3221354 0.3276997 0.3256133 3 8.864223 273.9730 1.216403 6 4 437 446 0.3283951 0.3346545 0.3322203 3 75.098297 130.7581 1.216094 7 3 447 450 0.3374369 0.3395232 0.3426549 3 52.407469 208.6178 1.215935 9 4 699 708 0.5301436 0.5364067 0.5339726 2 75.072328 127.8446 1.217695 10 2 709 717 0.5371024 0.5426667 0.5405800 2 8.911027 273.4827 1.217956 15 2 984 993 0.7388312 0.7450944 0.7426588 3 8.657688 271.8084 1.222582 16 4 994 1003 0.7457897 0.7520490 0.7496148 3 75.331453 130.2689 1.222570 17 3 1004 1013 0.7527446 0.7590035 0.7579604 3 52.441773 206.1968 1.222612 19 4 1281 1290 0.9474996 0.9537626 0.9513265 2 75.417828 130.2390 1.225496 20 2 1291 1300 0.9544580 0.9607211 0.9582854 2 8.656242 272.4442 1.225726 jfcv2 co2slp o2slp co2sd o2sd 2 1.335678 0.0027468168 1.4561752 0.006731249 3.185651 3 1.335924 -0.0066579381 1.1255083 0.018212627 4.534250 5 1.336833 -0.0103788601 1.4182650 0.022971672 3.605451 6 1.336439 0.0016806799 0.9269609 0.011085491 3.695512 7 1.336280 0.0020590682 -1.4742468 0.001458408 20.600186 9 1.338277 -0.0032123322 -0.3355295 0.013842132 3.525328 10 1.338521 -0.0064606459 1.8244353 0.015407269 4.445254 15 1.343601 -0.0063894738 1.7027377 0.019411084 4.554888 16 1.343593 0.0072708222 0.8554932 0.021940940 2.557570 17 1.343659 -0.0045289148 -3.0519222 0.016730030 4.104335 19 1.346794 -0.0005343182 1.9685530 0.009536452 5.267979 20 1.347053 -0.0056669692 -2.7441745 0.019918793 9.085863 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.985 co2l1 = 0.416 co2l0 = -0.196" [1] "co2l0 = -142.49 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "101 out of 205 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "104 out of 1187 1-min values rejected as stack air" [1] "104 out of 1134 Line 1 1-min values rejected as stack air" [1] "0 out of 53 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"