[1] "2025-04-30 03:31:50 MDT" [1] "1708" "170912" "d255" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170912a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 81120 63 [1] 81120 [1] 81120 [1] "testing skipping spike filter" [1] 81120 [1] 81120 [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 03:31:54 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.876, ave o2scale2 = 1.529" [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] "292 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.876, ave o2scale2 = 1.529" [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] "293 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:31:54 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:31:54 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:32:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:32:16 MDT" [1] "reading in recalculated plot titles" [1] "Removed 293 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1057 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:32:19 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.439 co2off = 419.62 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.94 minutes" [1] "Average Cal: 6.77 minutes" [1] "Shortest Cal: 4.11 minutes" [1] "Longest Cal: 8.24 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 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 95 102 0.08136117 0.08687899 0.08490627 3 -4.015167 327.2756 3 4 103 110 0.08767092 0.09318440 0.09121531 3 -1.293042 170.7415 4 3 111 118 0.09397205 0.09949413 0.09910032 3 -4.828323 298.7339 6 4 309 314 0.28959635 0.29354705 0.29236559 2 -1.419719 166.6046 7 2 315 319 0.29590992 0.29906050 0.29827288 2 -4.163604 324.8216 9 2 518 525 0.49788333 0.50359959 0.50133724 2 -4.300806 321.6530 10 4 526 531 0.50645709 0.51002697 0.50895599 2 -1.543375 167.0157 14 4 725 730 0.70584332 0.71013238 0.70887941 2 -1.499740 168.4671 15 2 731 739 0.71227569 0.71798796 0.71584606 2 -4.245598 325.4553 17 2 938 946 0.91379308 0.91950558 0.91736281 3 -4.088982 323.3552 18 4 947 955 0.92022312 0.92593660 0.92379349 3 -1.342804 162.9911 19 3 956 964 0.92665095 0.93237121 0.93165722 3 -4.880821 305.3012 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.160689 0.6697171 -7.518616e-04 2.10248954 0.0016815481 5.3242358 3 1.160303 0.6694288 8.281462e-04 0.90192355 0.0019889015 3.2987672 4 1.160002 0.6691879 6.461290e-04 1.03094209 0.0018406931 0.8267918 6 1.143887 0.6582348 -4.739038e-04 -2.79709389 0.0006950345 4.5499518 7 1.143558 0.6578854 -8.265947e-05 3.72674140 0.0001572882 4.4545965 9 1.127061 0.6461745 -6.431433e-04 -1.51698557 0.0015756336 5.3241462 10 1.127342 0.6462457 1.276451e-03 -2.16579445 0.0017655559 5.8155340 14 1.131614 0.6461572 2.269546e-03 0.83322203 0.0040263573 1.4675548 15 1.132149 0.6462533 1.676055e-03 0.09421555 0.0039288690 3.0924014 17 1.150009 0.6535261 1.139567e-03 1.99406121 0.0027619801 5.7603219 18 1.150082 0.6535391 8.658472e-04 -0.85466606 0.0026154162 2.5628106 19 1.150372 0.6535393 5.697100e-04 5.03445781 0.0016143193 5.1763670 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 415.333 co2l1 = 4.436 co2l0 = -0.014" [1] "co2l0 = -163.96 co2l1 = 0.231" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "108 out of 230 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "122 out of 914 1-min values rejected as stack air" [1] "122 out of 914 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"