[1] "2025-04-29 21:39:35 MDT" [1] "1406" "140725" "d206" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140725a.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 21:39:39 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.727" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.727" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:39:39 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:39:39 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:39:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:40:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:40:07 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 = 385.81 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 7 16 0.00486577 0.01113145 0.008694915 2 39.08691 137.3341 3 2 17 26 0.01182778 0.01809109 0.015654206 2 -19.34276 283.0794 5 2 307 316 0.21362650 0.21988657 0.217451693 3 -19.36346 282.6019 6 4 317 326 0.22058194 0.22684473 0.224407737 3 39.08510 142.8441 7 5 327 336 0.22754013 0.23380318 0.232759860 NA 16.80456 198.6969 8 3 337 346 0.23449864 0.24075810 0.239714714 3 19.28179 214.1358 10 4 607 616 0.42238116 0.42864416 0.426210033 2 39.06663 136.9876 11 2 617 626 0.42934317 0.43560639 0.433169220 2 -19.34442 283.3979 13 2 906 915 0.63117480 0.63743764 0.635003602 3 -19.29378 282.4506 14 4 916 925 0.63813681 0.64440038 0.641962779 3 39.13729 136.3222 15 3 926 935 0.64509586 0.65135883 0.650314634 3 19.32572 216.1811 17 4 1206 1215 0.83994552 0.84620466 0.843770403 2 39.13970 135.4772 18 2 1216 1225 0.84690006 0.85316302 0.850728722 2 -19.30961 285.6384 19 5 1226 1235 0.85385833 0.86012156 0.859078176 NA 16.80734 196.4996 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.240855 1.377593 -0.0033204621 -1.05467030 0.009705427 3.288875 3 1.241205 1.377965 -0.0036167948 0.69709980 0.012244461 3.525911 5 1.240101 1.376747 0.0003040008 0.81827652 0.003923791 2.898372 6 1.239931 1.376537 0.0006943665 -0.28677155 0.015688191 5.629228 7 1.240005 1.376644 -0.0093605691 0.62000396 0.006629126 3.173445 8 1.239864 1.376500 -0.0061678962 -0.66078036 0.015782561 1.153020 10 1.237961 1.374321 0.0048616977 -0.48998608 0.012371031 3.211735 11 1.238157 1.374558 -0.0004620211 0.02539554 0.008417320 2.624736 13 1.238028 1.374430 0.0007830528 -1.39420463 0.007963505 3.709339 14 1.238072 1.374466 0.0024696784 -0.42725865 0.013379378 2.567259 15 1.238244 1.374668 0.0030304596 -6.07452969 0.009051009 8.259257 17 1.238678 1.375120 -0.0022392188 0.70012756 0.007168706 2.740620 18 1.238857 1.375314 -0.0046398903 0.83192411 0.018311045 4.678022 19 1.238951 1.375423 -0.0044299322 -0.70716547 0.003137786 1.138536 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.768 co2l1 = 0.473 co2l0 = 0.082" [1] "co2l0 = -143.76 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "81 out of 335 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "254 out of 1243 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "254 out of 1243 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"