[1] "2025-04-29 23:00:58 MDT" [1] "1501" "150131" "d031" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150131a.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 23:01:02 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.85, ave o2scale2 = 0.767" [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] "56 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.85, ave o2scale2 = 0.767" [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] "56 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:01:02 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:01:02 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:01:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:01:22 MDT" [1] "reading in recalculated plot titles" [1] "Removed 56 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1379 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:01:29 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.937 co2off = 384.41 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.73 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 214 223 0.1533186 0.1595821 0.1571463 2 12.378953 127.1088 3 2 224 233 0.1602774 0.1665405 0.1641044 2 -17.084156 269.7332 4 5 234 243 0.1672360 0.1734988 0.1724552 NA 1.415719 193.1601 6 2 510 518 0.3627369 0.3683044 0.3662176 3 -17.110500 295.2616 7 4 519 528 0.3689997 0.3752628 0.3728287 3 12.346727 138.6889 8 3 529 538 0.3759584 0.3822176 0.3811745 3 2.479586 213.7316 10 4 772 781 0.5707812 0.5770440 0.5746088 2 12.302641 136.2273 11 2 782 791 0.5777394 0.5840079 0.5815692 2 -17.168914 282.4885 13 2 1065 1074 0.7795668 0.7858265 0.7833924 3 -17.138375 282.6743 14 4 1075 1084 0.7865220 0.7927820 0.7903477 3 12.320039 138.3089 15 5 1085 1094 0.7934773 0.7997406 0.7986973 NA 1.260125 197.1755 16 3 1095 1104 0.8004360 0.8066991 0.8056558 3 2.438266 211.2170 18 4 1363 1372 0.9883218 0.9945856 0.9921497 2 12.288297 126.4299 19 2 1373 1379 0.9952813 0.9994579 0.9980655 2 -17.168737 279.7891 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.177699 1.304779 0.0013378585 -1.7996157 0.0044402972 5.0148220 3 1.177509 1.304629 -0.0026464576 4.3238101 0.0074839113 12.3695884 4 1.177123 1.304147 -0.0006864132 2.8602554 0.0004861359 4.2365709 6 1.176803 1.303910 -0.0006217385 -5.1637438 0.0016925080 11.1896801 7 1.176758 1.303811 0.0008716385 -2.9609535 0.0043241867 12.0829646 8 1.176858 1.303921 -0.0021436143 -0.1015515 0.0070611912 1.2568024 10 1.175099 1.302134 -0.0010363893 2.9477777 0.0036337256 9.4323815 11 1.175127 1.302154 -0.0015333131 1.4772750 0.0057270444 8.2698261 13 1.176160 1.303204 0.0024485606 -0.4556712 0.0065550553 7.6315538 14 1.175975 1.302983 0.0001924205 -1.4757878 0.0010132699 5.7750645 15 1.175854 1.302862 0.0024963595 -0.3119625 0.0017677670 0.5878805 16 1.176024 1.303043 -0.0007459517 1.1535194 0.0029421032 2.6445684 18 1.175717 1.302693 -0.0010053730 -2.2929670 0.0036069053 7.0054392 19 1.175842 1.302765 -0.0016446278 1.0586286 0.0052056160 9.4836417 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.688 co2l1 = 0.937 co2l0 = 0.008" [1] "co2l0 = -142.11 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "55 out of 255 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "200 out of 1196 1-min values rejected as stack air" [1] "200 out of 1196 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"