[1] "2025-04-29 22:03:22 MDT" [1] "1408" "140918" "d261" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140918a.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 22:03:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.836, ave o2scale2 = 0.752" [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] "48 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.836, ave o2scale2 = 0.752" [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] "48 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:03:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:03:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:03:46 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:03:47 MDT" [1] "reading in recalculated plot titles" [1] "Removed 48 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1388 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:03:51 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 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [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 = 0.477 co2off = 400.43 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.63 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 2 2 [2,] 3 4 [3,] 5 7 [4,] 8 9 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 5 1 10 0.001752141 0.008011603 0.006968215 NA 10.91825 200.2991 2 3 11 20 0.008707147 0.014977315 0.013929970 1 12.95147 213.1886 4 4 278 287 0.196550608 0.202810185 0.200375673 2 32.55672 137.3162 5 2 288 297 0.203505787 0.209765046 0.207330679 2 -25.39932 290.3483 7 2 574 583 0.405219936 0.411479167 0.409045143 3 -25.38505 288.9932 8 4 584 591 0.412174769 0.417738426 0.415999957 3 32.58943 137.8077 9 3 592 600 0.419825145 0.425388889 0.424693306 3 12.91279 214.5742 11 4 865 874 0.613896875 0.620159722 0.617723651 2 32.65365 142.6378 12 2 875 884 0.620855150 0.627117882 0.624682708 2 -25.31439 280.6526 13 5 885 894 0.627813079 0.634076128 0.633032899 NA 11.00009 202.2813 15 2 1154 1163 0.822572714 0.828832784 0.826398456 3 -25.27353 278.3155 16 4 1164 1170 0.829528154 0.834401244 0.833010237 3 32.69592 146.9457 17 3 1171 1179 0.837183131 0.842747656 0.842052083 3 13.06307 221.4802 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.189358 1.322196 -7.986357e-03 -1.5641852 0.005656854 3.914534 2 1.189317 1.322132 9.936854e-04 -1.7493708 0.008122871 2.438717 4 1.190613 1.323275 6.094581e-05 0.1215629 0.003004461 4.207323 5 1.190779 1.323506 -1.493749e-03 2.2261506 0.009947263 8.169444 7 1.193488 1.326445 -3.292298e-03 0.4182591 0.008524743 8.506368 8 1.193677 1.326660 5.513840e-03 7.7236446 0.014075211 14.938246 9 1.193389 1.326462 -9.360043e-04 -4.2120938 0.004624256 4.482526 11 1.197335 1.330545 9.817177e-04 -0.7891129 0.007790214 4.560156 12 1.197654 1.330869 -3.132273e-03 0.1016804 0.011609136 5.398788 13 1.197800 1.331017 3.807107e-03 3.1934438 0.002695845 4.606089 15 1.203642 1.336902 -6.139054e-03 3.8597109 0.015258268 14.224330 16 1.203684 1.337066 5.899034e-03 -1.8101106 0.011951716 3.900650 17 1.204313 1.337639 2.915097e-03 -3.2935552 0.006942325 3.410121 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 388.734 co2l1 = 0.476 co2l0 = 0.098" [1] "co2l0 = -144.29 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "136 out of 300 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "164 out of 1210 1-min values rejected as stack air" [1] "164 out of 1210 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] "making html"