[1] "2025-04-29 18:29:16 MDT" [1] "1304" "130419" "d109" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130419a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86040 63 [1] 86040 [1] 86040 [1] "testing skipping spike filter" [1] 86040 [1] 86040 [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 18:29:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.769, ave o2scale2 = 0.772" [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] "100 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.769, ave o2scale2 = 0.772" [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] "100 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:29:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:29:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:29:37 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:29:39 MDT" [1] "reading in recalculated plot titles" [1] "Removed 100 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1332 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:29:51 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 = 0.361 co2off = 385.04 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.07 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 208 217 0.1477299 0.1539929 0.1515576 2 71.24008 -59.762072 3 2 218 227 0.1546881 0.1609510 0.1585170 2 -14.37574 97.324981 5 2 502 511 0.3563889 0.3626533 0.3602181 3 -14.02403 99.736479 6 4 512 519 0.3633519 0.3696146 0.3671780 3 71.12812 -54.837514 7 3 520 528 0.3703102 0.3765737 0.3758783 3 41.75677 10.001127 9 4 755 763 0.5653870 0.5716826 0.5692823 2 71.39172 -59.658763 10 2 764 773 0.5723779 0.5786409 0.5762044 2 -14.68638 96.249782 13 2 1016 1025 0.7741398 0.7804026 0.7779684 3 -14.78925 98.309214 14 4 1026 1035 0.7810979 0.7873607 0.7849266 3 71.40852 -59.258225 15 3 1036 1045 0.7880561 0.7943189 0.7932758 3 41.74741 8.537439 17 4 1309 1317 0.9829904 0.9892534 0.9869656 2 71.41173 -63.548249 18 2 1318 1327 0.9899487 0.9962112 0.9937754 2 -14.67254 101.463529 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.295344 1.290289 0.0063751917 1.1040457 0.015874675 5.480810 3 1.295503 1.290457 0.0164160201 -0.1182636 0.042015933 3.004838 5 1.297394 1.292085 -0.0091720619 2.0267525 0.023177306 7.392060 6 1.297376 1.292115 0.0029369153 2.6906730 0.013398636 7.748437 7 1.297355 1.292153 0.0030659623 2.4888875 0.010274597 3.271306 9 1.300366 1.295230 -0.0011242892 -0.6130479 0.007553012 2.064698 10 1.300915 1.295747 0.0020938070 1.1550208 0.015099205 5.207669 13 1.305691 1.300885 -0.0019151838 1.5664757 0.008144003 7.849292 14 1.305731 1.300932 0.0103402378 1.6563428 0.027959029 6.745696 15 1.305992 1.301226 -0.0007126879 3.0221393 0.007369701 4.054073 17 1.308725 1.303931 -0.0051536905 -2.8541901 0.017437415 14.175265 18 1.308769 1.303950 0.0010998544 0.5714891 0.023313612 5.453284 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.59 co2l1 = 0.362 co2l0 = 0.118" [1] "co2l0 = -98.78 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "125 out of 210 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "85 out of 1156 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "85 out of 1156 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"