[1] "2025-04-29 21:27:17 MDT" [1] "1406" "140704" "d185" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140704a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 21:27:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.747" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.747" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:27:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:27:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:27:42 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:27:44 MDT" [1] "reading in recalculated plot titles" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:27:48 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.4" [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 = 0.47 co2off = 382.82 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.03 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 jfcv1 2 4 181 190 0.1265376 0.1328010 0.1303646 2 46.15673 127.2802 1.201918 3 2 191 200 0.1334965 0.1397594 0.1373234 2 -12.73905 279.8893 1.202146 7 2 481 490 0.3353090 0.3415718 0.3391343 3 -12.92973 280.4551 1.200595 8 4 491 500 0.3422674 0.3485266 0.3460923 3 45.93450 139.1704 1.200506 9 3 501 510 0.3492257 0.3554919 0.3544466 3 25.96095 218.6440 1.200374 11 4 781 790 0.5440961 0.5503588 0.5479246 2 45.73032 129.9943 1.204005 12 2 791 800 0.5510544 0.5573201 0.5548836 2 -13.14116 282.9303 1.204368 13 5 801 810 0.5580163 0.5642837 0.5632408 NA 23.08281 193.7457 1.204565 15 2 1081 1090 0.7528611 0.7591247 0.7566873 3 -13.20938 282.6003 1.210839 16 4 1091 1100 0.7598201 0.7660833 0.7636468 3 45.62673 132.8288 1.210919 17 3 1101 1110 0.7667789 0.7730386 0.7719952 3 25.68125 208.8995 1.211123 20 4 1381 1390 0.9616409 0.9679056 0.9654679 2 45.47518 133.1968 1.216602 21 2 1391 1400 0.9686010 0.9748646 0.9724279 2 -13.35113 280.8089 1.216812 jfcv2 co2slp o2slp co2sd o2sd 2 1.333958 -0.0014747891 3.1048161 0.010090038 10.673864 3 1.334121 -0.0026728526 0.2924362 0.014141561 4.325122 7 1.332354 -0.0077322677 0.5899486 0.020076660 2.837534 8 1.332288 0.0020310944 0.4089636 0.011424539 3.242956 9 1.332129 -0.0028918395 2.5849973 0.010282546 3.563196 11 1.336163 0.0023349468 -2.1489882 0.006256108 5.557140 12 1.336553 -0.0074991870 1.5917157 0.020779991 4.237363 13 1.336782 -0.0186032962 0.8738487 0.013169864 2.665221 15 1.343454 -0.0075588794 0.5054895 0.019406397 2.767623 16 1.343564 0.0019841644 1.1206232 0.015129454 5.671260 17 1.343753 0.0003289982 -4.8565154 0.010527388 7.852724 20 1.349621 0.0003563765 0.7957934 0.004534766 7.569634 21 1.349805 -0.0022618695 -1.6249974 0.009198726 5.106006 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.767 co2l1 = 0.469 co2l0 = 0.061" [1] "co2l0 = -142.03 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "97 out of 385 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "288 out of 1247 1-min values rejected as stack air" [1] "276 out of 1170 Line 1 1-min values rejected as stack air" [1] "12 out of 77 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"