[1] "2025-04-29 21:42:03 MDT" [1] "1406" "140729" "d210" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140729a.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 21:42:07 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.739" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.739" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "2 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:42:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:42:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:42:29 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:42:30 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:42:36 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 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [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 = 0.473 co2off = 386.14 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 255 264 0.1791655 0.1854283 0.1829924 2 38.54113 137.0624 1.223484 3 2 265 274 0.1861238 0.1923866 0.1899516 2 -19.88860 282.3198 1.223417 5 2 555 564 0.3879640 0.3942243 0.3917893 3 -19.95407 280.5375 1.219042 6 4 565 574 0.3949216 0.4011852 0.3987487 3 38.45990 137.6589 1.218960 7 3 575 584 0.4018819 0.4081465 0.4071028 3 18.64705 219.5803 1.218967 9 4 855 864 0.5967351 0.6029981 0.6005640 2 38.44796 132.1748 1.215765 10 2 865 874 0.6036973 0.6099856 0.6075499 2 -19.99761 281.9526 1.214808 11 5 875 884 0.6106809 0.6169416 0.6158980 NA 16.24434 200.1219 1.214765 13 2 1155 1164 0.8055250 0.8117880 0.8093531 3 -20.07548 277.4527 1.214321 14 4 1165 1174 0.8124834 0.8187465 0.8163107 3 38.35048 138.0903 1.214370 15 3 1175 1184 0.8194421 0.8257049 0.8246619 3 18.54487 192.8973 1.214492 jfcv2 co2slp o2slp co2sd o2sd 2 1.358735 -0.0017976421 -0.52188709 0.011942124 4.1246728 3 1.358666 -0.0039512668 -0.93015836 0.014525568 2.7749587 5 1.353913 -0.0039084399 -0.26429019 0.009982654 2.0398051 6 1.353821 0.0060047560 -0.02786175 0.019168337 2.8724198 7 1.353827 -0.0024728552 0.56255385 0.007589087 0.9596418 9 1.350249 -0.0020276588 0.55573108 0.006679772 4.5451013 10 1.349194 -0.0028233247 -0.10734924 0.015053022 2.2190273 11 1.349145 -0.0136635887 -0.25155765 0.009678524 0.7298268 13 1.348518 -0.0033133298 0.21522795 0.010203561 3.1738996 14 1.348573 0.0057966073 0.65907350 0.016542382 3.5017462 15 1.348670 -0.0002923148 -18.73172127 0.008064849 25.2237147 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.079 co2l1 = 0.473 co2l0 = 0.087" [1] "co2l0 = -143.2 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "142 out of 715 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "573 out of 1277 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "573 out of 1277 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"