[1] "2025-04-29 18:31:35 MDT" [1] "1304" "130423" "d113" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130423a.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 18:31:39 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.764" [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] "83 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.764" [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] "85 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:31:40 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:31:40 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:31:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:32:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 85 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1351 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:32:16 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 = -448.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.7" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.358 co2off = 393.18 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.15 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.02 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 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 125 134 0.08879248 0.09505524 0.09261975 3 -15.60730 96.079331 3 4 135 144 0.09575061 0.10201398 0.09957846 3 71.93677 -62.073111 5 3 149 158 0.10966782 0.11593058 0.11488662 3 41.95479 7.741412 7 4 406 414 0.29756884 0.30383226 0.30124781 2 71.84529 -60.626477 8 2 415 424 0.30452778 0.31079054 0.30835647 2 -14.71534 94.516895 10 2 680 687 0.50704977 0.51192306 0.51018045 3 -15.03991 99.612876 11 4 688 691 0.51400926 0.51957694 0.51922924 3 71.79787 -65.160548 12 3 692 699 0.52027225 0.52583973 0.52549207 3 41.96041 5.216604 14 4 953 962 0.71515046 0.72141319 0.71897883 2 71.81608 -62.765264 15 2 963 972 0.72210880 0.72837240 0.72593762 2 -14.59222 100.351994 18 2 1245 1254 0.92389352 0.93015625 0.92772111 3 -14.48894 96.901988 19 4 1255 1262 0.93224653 0.93711458 0.93537585 3 71.68516 -63.952939 20 3 1263 1272 0.93781380 0.94407639 0.94303041 3 41.95967 6.709157 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.322486 1.319283 -0.018953444 -5.309037e-01 0.046791959 2.162734 3 1.322272 1.319076 0.011344701 -7.915696e-01 0.028827418 2.179761 5 1.321971 1.318739 0.007327072 3.913931e+00 0.018146845 5.322431 7 1.316299 1.312767 0.001664444 3.914127e-01 0.005958110 1.950603 8 1.315764 1.312168 -0.005904568 5.133903e-03 0.018875235 1.165458 10 1.311097 1.307252 0.002407145 5.314842e-01 0.004810592 1.479500 11 1.310187 1.306290 0.017229435 -7.897085e-15 0.012199802 0.000000 12 1.310624 1.306761 0.003103003 6.171211e-01 0.005922735 0.436916 14 1.308321 1.304312 0.004316537 -8.903294e-01 0.012998830 2.515134 15 1.308309 1.304289 -0.002338484 -1.212477e+00 0.010479412 4.034395 18 1.304551 1.300284 -0.021864026 -2.112193e-01 0.054664990 1.871522 19 1.304122 1.299853 0.006328247 7.284473e-01 0.013810930 1.507899 20 1.303909 1.299643 -0.000497992 -1.028411e+00 0.007291197 1.453490 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.683 co2l1 = 0.358 co2l0 = 0.114" [1] "co2l0 = -98.22 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "30 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "105 out of 1164 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "105 out of 1164 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"