[1] "2025-04-29 21:38:23 MDT" [1] "1406" "140723" "d204" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140723a.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 21:38:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.745" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.745" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:38:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:38:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:38:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:38:48 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 21:38:54 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 = 386.14 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: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 180 189 0.1260518 0.1323148 0.1298791 3 -20.03504 279.9682 1.205784 3 4 190 199 0.1330104 0.1392731 0.1368387 3 38.40884 138.7166 1.205720 4 3 200 209 0.1399688 0.1462316 0.1451884 3 18.61331 217.3317 1.205753 6 4 480 489 0.3348559 0.3411155 0.3386810 2 38.43655 138.5880 1.206400 7 2 490 499 0.3418109 0.3480737 0.3456374 2 -20.02212 281.7518 1.206577 8 5 500 509 0.3487690 0.3550317 0.3539887 NA 15.93581 199.0599 1.206729 10 2 780 789 0.5435981 0.5498576 0.5474236 3 -19.95225 279.6846 1.209742 11 4 790 799 0.5505532 0.5568125 0.5543784 3 38.47016 137.8140 1.209526 12 3 800 809 0.5575081 0.5637708 0.5627276 3 18.66146 217.8705 1.209965 14 4 1080 1089 0.7523525 0.7586157 0.7561813 2 38.56613 137.3978 1.211909 15 2 1090 1099 0.7593111 0.7655814 0.7631409 2 -19.83783 279.7705 1.213081 17 2 1380 1389 0.9610960 0.9673588 0.9649248 3 -19.77302 279.7105 1.216554 18 4 1390 1399 0.9680544 0.9743173 0.9718827 3 38.65323 137.1408 1.216674 19 5 1400 1409 0.9750128 0.9812758 0.9802328 NA 16.31847 195.7287 1.217045 20 3 1410 1419 0.9819712 0.9882315 0.9871877 3 18.86634 217.8124 1.217186 jfcv2 co2slp o2slp co2sd o2sd 2 1.338986 0.0008884502 0.13145096 0.006603819 3.1704260 3 1.338926 0.0059161213 0.62067576 0.017770673 2.9743087 4 1.338961 -0.0018203180 0.50720156 0.009263745 0.7559200 6 1.339712 -0.0042334920 0.12123378 0.011545786 1.1265155 7 1.339898 -0.0043836269 -0.82949450 0.013138150 2.3732389 8 1.340063 -0.0103624787 -0.03427362 0.007336233 0.4553692 10 1.343417 -0.0050598057 -0.16616146 0.013571693 1.8172508 11 1.343164 0.0031435076 0.40396513 0.012044326 2.5007788 12 1.343639 -0.0028798288 0.22966301 0.007581546 3.9636761 14 1.345783 0.0005341501 0.84248953 0.004502658 2.6631287 15 1.347092 -0.0038048869 1.18027075 0.011100935 3.5452204 17 1.350916 -0.0043183409 0.98953031 0.012427457 3.2503303 18 1.351054 0.0049945073 -0.08578261 0.017643220 1.2872573 19 1.351465 -0.0024342543 -0.88495795 0.001723573 1.5287208 20 1.351615 -0.0009456944 -0.08098113 0.002825454 1.4129844 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.055 co2l1 = 0.473 co2l0 = 0.082" [1] "co2l0 = -144.62 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "185 out of 390 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "205 out of 1228 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "205 out of 1228 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"