[1] "2025-04-29 21:10:13 MDT" [1] "1404" "140501" "d121" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140501a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 75300 63 [1] 75300 [1] 75300 [1] "testing skipping spike filter" [1] 75300 [1] 75300 [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 21:10:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.83, ave o2scale2 = 0.755" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "318 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.83, ave o2scale2 = 0.755" [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] "317 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:10:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:10:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:10:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:10:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 317 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 935 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:10:25 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 = 0.429 co2off = 358.69 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.03 minutes" [1] "Average Cal: 7.26 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 6 [4,] 7 8 [5,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 4 1 5 0.1484884 0.1533565 0.1526610 1 75.139542 121.2340 1.223873 4 4 255 263 0.3426248 0.3481921 0.3461045 2 74.523643 130.5060 1.213221 5 2 264 267 0.3495829 0.3530638 0.3527162 2 9.418344 265.3655 1.212247 7 2 441 447 0.5534514 0.5576241 0.5562334 3 9.592588 277.0635 1.205155 8 4 448 457 0.5583194 0.5645823 0.5621485 3 74.271703 129.4674 1.204825 9 3 458 466 0.5652778 0.5708449 0.5701495 3 52.092598 207.9914 1.204234 11 4 638 643 0.7619156 0.7661048 0.7647089 2 73.979969 134.9315 1.193115 12 2 644 650 0.7668021 0.7723947 0.7709966 2 10.135125 279.4925 1.193625 15 2 897 903 0.9683484 0.9732303 0.9714178 3 9.940937 276.1208 1.193497 16 4 904 913 0.9753214 0.9815972 0.9791579 3 74.056461 130.5438 1.193560 17 3 914 921 0.9829919 0.9878700 0.9875216 3 52.072302 214.0520 1.193217 jfcv2 co2slp o2slp co2sd o2sd 1 1.346172 0.0048675150 4.928596e+00 0.005064172 10.451432 4 1.333693 0.0037674608 1.989862e+00 0.012389286 4.992928 5 1.332702 -0.0241643425 5.206209e-14 0.017103145 0.000000 7 1.325153 0.0089879487 1.165253e+00 0.014828881 4.362831 8 1.324719 0.0018039146 1.080886e+00 0.016925643 4.286823 9 1.323970 -0.0038105338 -2.691871e+00 0.009807712 2.714006 11 1.311984 -0.0061362822 1.285057e+00 0.011269047 4.383832 12 1.312616 0.0052406027 -1.064563e+00 0.011919079 1.924320 15 1.312272 0.0032108753 5.877261e-01 0.007685229 4.268294 16 1.312397 0.0007279546 6.436345e-01 0.021885455 2.896343 17 1.312040 -0.0053394280 -4.763926e+00 0.010524556 3.379974 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.435 co2l1 = 0.428 co2l0 = -0.22" [1] "co2l0 = -143.22 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 442 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "377 out of 772 1-min values rejected as stack air" [1] "373 out of 768 Line 1 1-min values rejected as stack air" [1] "4 out of 4 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"