[1] "2025-04-30 01:13:37 MDT" [1] "1601" "160205" "d036" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160205a.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] "2025-04-30 01:13:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.896, ave o2scale2 = 0.789" [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 = 0.896, ave o2scale2 = 0.789" [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] "2025-04-30 01:13:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:13:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:13:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:14:01 MDT" [1] "reading in recalculated plot titles" [1] "Removed 55 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 30 row(s) with low FLSP" [1] "Removed 20 row(s) with high TFRIDGE" [1] "TEMP: 1330 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:14:03 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.947 co2off = 399.48 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.18 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 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 8 [4,] 9 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 8 0.001794444 0.006662847 0.004924156 3 -21.477229 492.3957 2 4 9 18 0.007358247 0.013621586 0.011186288 3 1.213133 378.6424 3 3 19 28 0.014317419 0.020577546 0.019534361 3 -12.351086 482.8664 5 4 292 301 0.209106568 0.215365828 0.212932064 2 1.151563 381.2671 6 2 302 311 0.216061400 0.222324190 0.219889384 2 -21.558797 496.8622 8 2 577 586 0.417790104 0.424048900 0.421614981 3 -21.564344 493.5519 9 4 587 596 0.424744387 0.431003791 0.428569864 3 1.139133 380.3748 10 3 597 606 0.431699161 0.437958565 0.436915249 3 -12.416297 475.4560 12 4 870 878 0.627213021 0.632777141 0.630690546 2 1.220991 378.2926 13 2 879 885 0.633473206 0.638341435 0.636811244 2 -21.483635 494.9233 16 3 1162 1171 0.856070226 0.862333333 0.861289967 1 -12.297289 482.3793 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.116414 1.267832 -0.0021360737 0.164470292 0.006247083 1.261049 2 1.116275 1.267680 0.0022629838 2.018352816 0.008039762 5.427147 3 1.116120 1.267527 0.0023316769 1.347357805 0.006558795 1.899544 5 1.110896 1.261681 -0.0023953579 2.688523211 0.008122664 6.775222 6 1.110436 1.261162 -0.0004256118 1.128643816 0.003279698 4.695482 8 1.112911 1.263886 -0.0008261643 -0.009790038 0.002075850 2.545611 9 1.113132 1.264131 0.0028908222 0.407171648 0.007749239 2.651031 10 1.113298 1.264324 -0.0001530276 -2.442533841 0.001982555 3.180100 12 1.118547 1.270199 -0.0009851938 1.796288865 0.003744341 4.437981 13 1.118633 1.270127 -0.0048555841 0.809982266 0.010158492 2.834968 16 1.121965 1.274185 -0.0020289848 -0.962693489 0.005384744 2.359506 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 405.037 co2l1 = 0.947 co2l0 = 0.002" [1] "co2l0 = -200.06 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "34 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "111 out of 1181 1-min values rejected as stack air" [1] "111 out of 1181 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"