[1] "2025-04-29 17:50:53 MDT" [1] "1301" "130125" "d025" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130125a.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 17:50:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.779" [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] "44 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.779" [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] "44 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:50:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:50:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:51:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:51:17 MDT" [1] "reading in recalculated plot titles" [1] "Removed 44 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1392 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:51:30 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 = -448.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.395 co2off = 380.42 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 198 206 0.1492002 0.1554596 0.1529760 2 63.47126 -59.006103 3 2 207 215 0.1568508 0.1624151 0.1603286 2 -14.79250 96.670897 5 2 488 497 0.3579070 0.3641667 0.3617326 3 -15.34047 93.892722 6 4 498 507 0.3648639 0.3711261 0.3686921 3 63.45095 -61.490651 7 3 508 517 0.3718216 0.3780810 0.3770379 3 36.39877 2.329170 9 4 779 788 0.5665995 0.5728623 0.5704272 2 63.46976 -66.418606 10 2 789 798 0.5735579 0.5798206 0.5773863 2 -15.77847 101.465480 11 5 799 808 0.5805162 0.5867755 0.5857324 NA 29.10409 -21.426648 13 2 1074 1083 0.7752789 0.7815417 0.7791068 3 -14.85728 92.626541 14 4 1084 1093 0.7822372 0.7884965 0.7860623 3 63.49859 -62.743116 15 3 1094 1103 0.7891921 0.7954548 0.7944115 3 36.47551 7.681909 17 4 1370 1379 0.9839641 0.9902253 0.9877893 2 63.66800 -62.729962 18 2 1380 1389 0.9909225 0.9971815 0.9947473 2 -14.97023 96.623489 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.295785 1.283560 0.004544549 3.0533466 0.013366230 10.422085 3 1.296455 1.283779 0.030416946 -0.8029828 0.066666536 2.612898 5 1.296399 1.285134 -0.014179470 -0.1146724 0.036872563 1.612501 6 1.296540 1.285324 0.008107048 0.5211815 0.020682624 1.586953 7 1.296746 1.285516 0.010027497 -0.7942333 0.025158266 1.311797 9 1.298335 1.284852 0.005696505 1.4105366 0.015277911 7.550058 10 1.298473 1.284860 -0.015350931 3.0734868 0.038678347 7.932983 11 1.298664 1.284770 0.049760666 0.9277033 0.035222757 2.840737 13 1.300105 1.285186 -0.029963700 -1.2194529 0.073862671 7.457605 14 1.299844 1.284991 0.011378038 -1.1382735 0.030395293 5.652771 15 1.299798 1.284992 0.006168423 -0.2444127 0.020707665 2.498682 17 1.299601 1.284911 -0.002136312 1.2137795 0.006806395 13.139332 18 1.299638 1.285014 -0.006738200 0.7581134 0.022172385 2.835219 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.317 co2l1 = 0.395 co2l0 = 0.132" [1] "co2l0 = -98.25 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "107 out of 405 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "298 out of 1214 1-min values rejected as stack air" [1] "298 out of 1214 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"