[1] "2025-04-29 21:11:19 MDT" [1] "1404" "140504" "d124" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140504a.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 21:11:23 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.755" [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] "107 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.755" [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] "108 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:11:24 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:11:24 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:11:38 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:11:39 MDT" [1] "reading in recalculated plot titles" [1] "Removed 108 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1328 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:11:42 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 = -476.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [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 = 0.426 co2off = 372.66 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.09 minutes" [1] "Shortest Cal: 3.04 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 2 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 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 12 21 0.01104873 0.01733388 0.01488307 3 9.375602 274.2353 3 4 22 30 0.01803435 0.02363686 0.02153411 3 74.676687 125.4575 5 3 35 43 0.03277367 0.03833681 0.03764120 3 52.324036 208.0296 7 4 283 292 0.21995072 0.22621412 0.22377930 2 74.598430 130.4858 8 2 293 300 0.22690949 0.23316898 0.23073480 2 9.419292 273.4181 10 2 553 562 0.42871372 0.43498131 0.43254502 3 9.601359 276.5425 11 4 563 572 0.43567674 0.44193981 0.43950374 3 74.474953 131.8902 12 3 573 582 0.44263542 0.44889841 0.44785433 3 52.205398 206.4997 14 4 848 857 0.63745981 0.64371991 0.64128529 2 74.492242 129.9877 15 2 858 866 0.64441542 0.64998296 0.64789466 2 9.725661 272.0154 18 2 1134 1143 0.84626548 0.85252859 0.85009389 3 9.867219 272.6979 19 4 1144 1151 0.85322595 0.85948744 0.85705340 3 74.247875 128.0415 20 3 1152 1161 0.86018299 0.86644282 0.86539972 3 52.158391 211.2293 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.213225 1.333594 -0.0031601297 1.2097999 0.008390507 4.371467 3 1.212838 1.333236 0.0059074531 1.9387535 0.015150933 5.801947 5 1.212090 1.332213 -0.0021732878 -0.4739714 0.006780012 1.090345 7 1.210692 1.330816 -0.0003170064 -0.1012902 0.007954842 3.148813 8 1.211298 1.331502 -0.0227078779 0.9306278 0.068207526 4.653678 10 1.205785 1.325646 0.0038626635 1.1341527 0.010307805 3.397043 11 1.205733 1.325588 0.0001169598 0.3238894 0.010127466 1.565314 12 1.205645 1.325498 -0.0028765214 -2.6074118 0.007319398 3.881759 14 1.203200 1.322753 0.0002116395 0.9227059 0.005479002 6.409451 15 1.203391 1.323018 -0.0056949000 0.2685338 0.014922537 1.864456 18 1.200020 1.319305 -0.0007063977 1.0144210 0.006989389 2.982431 19 1.200210 1.319506 0.0089375755 1.1287688 0.027494573 3.630943 20 1.200660 1.319997 0.0021487149 1.9759220 0.009584664 2.580289 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.563 co2l1 = 0.426 co2l0 = -0.216" [1] "co2l0 = -142.12 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "89 out of 399 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "310 out of 1139 1-min values rejected as stack air" [1] "310 out of 1139 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"