[1] "2025-04-29 17:24:14 MDT" [1] "1213" "121129" "d334" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121129a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 61954 63 [1] 61954 [1] 61954 [1] "testing skipping spike filter" [1] 61954 [1] 61954 [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 17:24:18 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.759, ave o2scale2 = 0.768" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 3 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "207 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.759, ave o2scale2 = 0.768" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 4 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "203 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:24:18 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:24:18 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:24:24 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:24:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 203 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with low FLWTA" [1] "Removed 13 row(s) with variable TFCELL" [1] "TEMP: 802 0 TRUE" [1] "Removed 7 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:24:28 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 = -449.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.256 co2off = 370.97 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 7.91 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 16.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 5 [4,] 7 7 [5,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 214 223 0.3883763 0.3946354 0.3922014 2 73.47822 37.86014 4 2 224 233 0.3953310 0.4015903 0.3991561 2 -49.62776 200.35612 7 2 512 521 0.5970186 0.6032778 0.6008438 2 -47.05320 199.21340 8 4 522 529 0.6039734 0.6088414 0.6071027 2 73.90684 43.57236 10 4 532 539 0.6359600 0.6408282 0.6390896 1 74.08441 41.29710 11 5 540 549 0.6415236 0.6477828 0.6467397 NA 18.23203 88.56165 14 4 662 678 0.7299017 0.7410293 0.7361611 1 73.75195 43.30865 16 2 783 787 0.9891067 0.9925843 0.9918888 2 -45.60523 223.37025 17 4 788 795 0.9946702 0.9995383 0.9977999 2 73.97516 43.11206 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.318072 1.303507 0.023953828 5.4188989 0.06358499 14.676210 4 1.318244 1.303722 0.053483765 2.7459452 0.13157776 8.037386 7 1.315993 1.301167 -0.049111762 1.2987886 0.12135393 4.186360 8 1.315587 1.300782 -0.012930300 1.0676659 0.03635976 4.338764 10 1.316092 1.301416 0.018534747 2.4284002 0.03770607 5.129687 11 1.316047 1.301401 0.147971708 -2.0200319 0.10478439 7.607175 14 1.315023 1.300404 0.006315307 0.1366453 0.03437646 4.402083 16 1.314489 1.299789 -0.040661649 10.5351085 0.04104151 10.550911 17 1.314218 1.299409 -0.019850305 0.2891397 0.03860741 6.764109 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.395 co2l1 = 0.256 co2l0 = 0" [1] "co2l0 = -121.69 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "102 out of 195 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "93 out of 669 1-min values rejected as stack air" [1] "43 out of 595 Line 1 1-min values rejected as stack air" [1] "50 out of 74 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"