[1] "2025-04-29 18:34:28 MDT" [1] "1304" "130428" "d118" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130428a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85500 63 [1] 85500 [1] 85500 [1] "testing skipping spike filter" [1] 85500 [1] 85500 [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 18:34:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.764" [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] "345 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.764" [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] "344 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:34:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:34:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:34:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:34:50 MDT" [1] "reading in recalculated plot titles" [1] "Removed 344 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1079 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:34:57 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 = -448" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.7" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.357 co2off = 374.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.58 minutes" [1] "Average Cal: 8.09 minutes" [1] "Shortest Cal: 4.02 minutes" [1] "Longest Cal: 9.17 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,] 4 6 [3,] 7 8 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 185 192 0.1599317 0.1648139 0.1630703 2 73.08319 -57.322951 3 2 193 197 0.1655116 0.1683010 0.1676037 2 -14.83994 95.969998 4 5 198 207 0.1724884 0.1787927 0.1777466 NA 31.07563 -13.952367 6 2 387 395 0.3671285 0.3734116 0.3711189 3 -15.34981 101.506694 7 4 396 404 0.3748031 0.3803830 0.3782859 3 73.19148 -61.093530 8 3 405 413 0.3810792 0.3873442 0.3866483 3 42.77835 8.595058 10 4 636 643 0.5772558 0.5821991 0.5804336 2 72.90894 -62.528373 11 2 644 653 0.5829061 0.5892593 0.5867882 2 -13.76441 97.824489 13 2 896 905 0.7848536 0.7912209 0.7887480 3 -13.85222 96.200525 14 4 906 914 0.7926319 0.7982743 0.7961585 3 73.02372 -60.977024 16 3 924 929 0.8060416 0.8116863 0.8127465 3 43.18593 22.022144 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.318785 1.315949 -0.0085589564 2.1855805484 0.017435192 4.9020666 3 1.318775 1.315882 -0.0194825911 -1.2319515368 0.021222132 1.2664835 4 1.318359 1.315495 -0.0298643660 -0.3865426279 0.021213203 2.5162396 6 1.317684 1.314837 -0.0148406066 -0.0499113662 0.041330514 3.6101984 7 1.317613 1.314815 -0.0005271904 -0.0005171751 0.009202278 0.7568537 8 1.317549 1.314718 0.0071187316 1.1145420165 0.018357244 1.1593133 10 1.312376 1.309171 -0.0100613058 -0.7805995110 0.019578408 1.9771513 11 1.312200 1.308971 -0.0169728589 0.1232607839 0.043464143 3.1548866 13 1.304651 1.300999 0.0017845252 -0.2756074953 0.008081408 1.0882839 14 1.304194 1.300512 0.0132268799 1.3982405332 0.030284456 3.4023490 16 1.304273 1.300611 0.0082914158 10.9598737246 0.025085518 23.6627258 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.469 co2l1 = 0.355 co2l0 = 0.109" [1] "co2l0 = -98.83 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "75 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "205 out of 930 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "205 out of 930 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"