[1] "2025-04-29 22:40:12 MDT" [1] "1411" "141214" "d348" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141214a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85446 63 [1] 85446 [1] 85446 [1] "testing skipping spike filter" [1] 85446 [1] 85446 [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 22:40:16 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.841, ave o2scale2 = 0.759" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "22 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.841, ave o2scale2 = 0.759" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "24 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:40:16 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:40:16 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:40:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:40:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 24 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1398 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:40:33 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 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635" [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 = 406.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.04 minutes" [1] "Average Cal: 8.7 minutes" [1] "Shortest Cal: 7.04 minutes" [1] "Longest Cal: 9.06 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,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 203 212 0.1431041 0.1493669 0.1469308 2 -25.622367 524.6052 3 4 213 222 0.1500633 0.1563264 0.1538905 2 3.626859 383.4301 6 3 322 329 0.2473748 0.2522639 0.2519136 3 -6.181635 466.7248 7 2 330 339 0.2529606 0.2592334 0.2567936 3 -25.625750 533.5013 8 4 340 349 0.2599316 0.2662020 0.2637639 3 3.631719 385.7697 9 5 350 359 0.2669018 0.2731959 0.2721512 NA -8.309188 440.6231 11 4 619 626 0.4546082 0.4594964 0.4577499 2 3.577323 381.0836 12 2 627 636 0.4615914 0.4678722 0.4654290 2 -25.669844 529.8289 14 2 916 925 0.6632793 0.6695635 0.6671210 3 -25.708211 529.2891 15 4 926 935 0.6702614 0.6765398 0.6740979 3 3.535930 384.1200 16 3 936 945 0.6772384 0.6835197 0.6824732 3 -6.268680 462.4347 18 4 1215 1224 0.8719357 0.8782179 0.8757741 2 3.535836 383.9158 19 2 1225 1234 0.8789162 0.8851931 0.8827518 2 -25.708297 527.7283 20 5 1235 1244 0.8858908 0.8921679 0.8911218 NA -7.660781 441.1692 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.194162 1.323433 0.0014635699 -0.84823604 5.121998e-03 3.493705 3 1.193996 1.323226 -0.0008524508 -0.62965741 5.439065e-03 6.760457 6 1.192409 1.322318 -0.0003989012 7.79566559 9.248451e-04 5.560601 7 1.192614 1.322567 -0.0010305416 0.26540613 3.407745e-03 5.173653 8 1.192670 1.322641 0.0003846084 -0.04607449 6.162422e-03 3.578765 9 1.192541 1.322456 -0.0048606207 -1.25674251 3.447146e-03 2.730482 11 1.189539 1.318837 -0.0022352703 -3.70795288 4.634183e-03 7.026675 12 1.189304 1.318595 0.0001556769 -0.70637374 2.992737e-03 3.216028 14 1.185937 1.314647 -0.0002171705 1.83217821 2.981891e-03 5.053772 15 1.185777 1.314487 -0.0006214484 -0.45276914 3.414360e-03 1.384167 16 1.185830 1.314525 -0.0009068643 -1.19736043 3.022320e-03 1.810687 18 1.186477 1.315283 0.0013785236 -0.56579186 4.672170e-03 2.657760 19 1.186571 1.315389 -0.0013705302 1.80668976 4.292949e-03 5.544848 20 1.186323 1.315115 0.0000622355 -0.83136626 4.419417e-05 1.147271 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.858 co2l1 = 0.944 co2l0 = 0.001" [1] "co2l0 = -197.82 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "105 out of 240 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "135 out of 1187 1-min values rejected as stack air" [1] "135 out of 1187 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] "LOXY data found" [1] "making html"