[1] "2025-04-29 19:02:29 MDT" [1] "1306" "130619" "d170" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130619a.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 19:02:33 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.784, ave o2scale2 = 0.726" [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] "55 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.784, ave o2scale2 = 0.726" [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] "55 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:02:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:02:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:02:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:02:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 55 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1381 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:03:05 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.307 co2off = 384.41 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.52 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.03 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 6 [3,] 7 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 94 103 0.06543203 0.07169485 0.06925984 2 46.43782 155.45392 3 2 104 113 0.07239025 0.07866128 0.07622174 2 -21.85200 248.75784 5 2 394 403 0.27417130 0.28043406 0.27799809 3 -20.56216 241.42274 6 4 404 413 0.28112963 0.28739236 0.28495750 3 46.70469 160.48380 7 5 414 423 0.28808796 0.29435087 0.29330573 NA 36.71725 133.51451 8 3 424 433 0.29504650 0.30130564 0.30026235 3 82.19107 86.51372 11 4 687 696 0.48289931 0.48916204 0.48672684 2 47.53173 160.64926 12 2 697 706 0.48985764 0.49612031 0.49368594 2 -19.60680 245.36016 14 2 982 991 0.69165972 0.69792271 0.69548623 2 -20.30214 245.98891 15 4 992 1001 0.69861806 0.70488079 0.70244497 2 47.39004 157.51868 20 4 1257 1262 0.90038990 0.90387089 0.90282744 2 47.37686 152.99507 21 2 1263 1272 0.90734838 0.91361409 0.91117767 2 -19.81182 251.23185 22 5 1273 1282 0.91431036 0.92057462 0.91953126 NA 37.26028 132.97627 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.286525 1.388856 -0.007389976 0.2491363 0.019878943 2.683841 3 1.286243 1.388553 -0.016746195 0.7346834 0.044222979 2.667919 5 1.277772 1.379490 -0.043232130 -0.4729388 0.107689129 3.956594 6 1.277302 1.378968 -0.012017347 -0.7629684 0.031428970 5.903554 7 1.277181 1.378794 -0.097124547 -1.9472799 0.068766134 2.569216 8 1.277191 1.378811 0.008124608 1.4261863 0.024166287 1.898357 11 1.272540 1.374002 -0.003074308 1.6787895 0.017687545 4.256363 12 1.272306 1.373762 -0.034921243 -0.2460609 0.086042217 1.720487 14 1.271640 1.373052 0.031089193 0.2901419 0.078240698 1.444871 15 1.271771 1.373193 0.023521843 0.4259279 0.058779665 2.596910 20 1.271735 1.373326 -0.009428335 -1.8741930 0.015095820 2.533658 21 1.272039 1.373606 -0.001957657 -2.2649087 0.009933284 6.412597 22 1.272276 1.373870 -0.064221520 -3.9319934 0.045475805 6.381444 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.557 co2l1 = 0.305 co2l0 = 0.157" [1] "co2l0 = -131.39 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "74 out of 665 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "591 out of 1190 1-min values rejected as stack air" [1] "380 out of 905 Line 1 1-min values rejected as stack air" [1] "211 out of 285 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"