[1] "2025-04-29 16:46:42 MDT" [1] "1207" "120708" "d190" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120708a.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 16:46:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.751, ave o2scale2 = 0.758" [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] "165 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.751, ave o2scale2 = 0.758" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "164 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:46:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:46:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:47:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:47:07 MDT" [1] "reading in recalculated plot titles" [1] "Removed 164 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1272 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:47:17 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 = -450.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.4" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.42 O2 = -582.4" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.28 O2 = -550.8" [1] "Nominal linear calibrations:" [1] "co2scl = 0.968 co2off = 391.49 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.11 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 236 240 0.1813125 0.1840943 0.1833988 3 -22.755938 124.20555 4 4 241 250 0.1847894 0.1910488 0.1886148 3 9.273305 -36.57891 5 3 251 260 0.1917443 0.1980035 0.1969602 3 -1.450031 28.94839 8 4 511 520 0.3864838 0.3927431 0.3903089 2 9.304344 -37.19858 9 2 521 530 0.3934385 0.3996979 0.3972637 2 -22.758266 118.74665 12 2 756 764 0.5958267 0.6013908 0.5993043 2 -22.764205 125.56109 13 4 765 773 0.6020862 0.6083451 0.6062589 2 9.295596 -37.17998 17 4 1023 1029 0.8038079 0.8100682 0.8078421 2 9.290082 -38.88599 18 2 1030 1039 0.8107638 0.8170231 0.8145889 2 -22.785453 119.33249 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.334098 1.322809 -0.0034635819 1.0361758 0.003489381 1.044475 4 1.333959 1.322613 0.0008818908 1.0760941 0.003709068 3.370839 5 1.333873 1.322532 0.0019229047 2.8134283 0.006669075 3.797739 8 1.331468 1.319952 -0.0002853129 0.9886036 0.001415397 4.410453 9 1.331467 1.319950 -0.0070656886 2.3151251 0.017748546 5.938709 12 1.334058 1.321448 0.0029261868 3.4504863 0.006726204 8.291347 13 1.333590 1.321278 0.0033316438 2.2140367 0.008387157 7.316837 17 1.328959 1.317166 0.0007730727 0.1305602 0.002885483 1.001012 18 1.328774 1.316974 -0.0030801861 0.4743321 0.009250709 2.374604 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.336 co2l1 = 0.967 co2l0 = 0.009" [1] "co2l0 = -104.04 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "152 out of 575 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "423 out of 1135 1-min values rejected as stack air" [1] "363 out of 457 Line 1 1-min values rejected as stack air" [1] "60 out of 678 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"