[1] "2025-04-29 16:50:33 MDT" [1] "1207" "120713" "d195" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120713a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 34320 63 [1] 34320 [1] 34320 [1] "testing skipping spike filter" [1] 34320 [1] 34320 [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 16:50:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.754, ave o2scale2 = 0.762" [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 > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.754, ave o2scale2 = 0.762" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:50:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:50:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:50:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:50:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 571 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:50:54 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 = -450.2" [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 = 0.965 co2off = 382.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.51 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 268 277 0.1865347 0.1927938 0.1903595 3 -22.872445 122.76671 4 4 278 287 0.1934892 0.1997488 0.1973145 3 9.333555 -37.25286 5 3 288 297 0.2004443 0.2067037 0.2056605 3 -1.455016 29.69135 8 4 568 571 0.3951913 0.3972778 0.3969300 1 9.295281 -39.56469 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.326951 1.314644 0.0008611631 2.4008629 0.0048751645 6.227512 4 1.326730 1.314409 0.0008550329 0.2994967 0.0059731017 1.358090 5 1.326613 1.314285 0.0036950507 1.2790424 0.0106352760 1.997536 8 1.324709 1.312281 -0.0008111818 4.1821511 0.0005745243 2.962033 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.357 co2l1 = 0.963 co2l0 = 0.012" [1] "co2l0 = -103.87 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "39 out of 286 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "247 out of 521 1-min values rejected as stack air" [1] "7 out of 258 Line 1 1-min values rejected as stack air" [1] "240 out of 263 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"