[1] "2025-04-29 21:36:34 MDT" [1] "1406" "140720" "d201" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140720a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85800 63 [1] 85800 [1] 85800 [1] "testing skipping spike filter" [1] 85800 [1] 85800 [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 21:36:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.729" [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] "5 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.729" [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] "5 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:36:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:36:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:36:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:36:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 5 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1424 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:37:03 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 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [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 = 0.472 co2off = 398.42 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.63 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 8 0.0009447917 0.00581713 0.004076215 1 -19.29780 280.9366 3 2 289 298 0.2013449363 0.20760425 0.205170135 3 -19.30395 283.2195 4 4 299 308 0.2082998264 0.21456209 0.212125600 3 39.16744 135.7539 5 5 309 318 0.2152587963 0.22152248 0.220477814 NA 16.99306 197.9553 6 3 319 328 0.2222177951 0.22848056 0.227437580 3 19.34462 218.8242 8 4 589 598 0.4101072917 0.41637292 0.413936545 2 39.08058 138.4011 9 2 599 608 0.4170706019 0.42332992 0.420895833 2 -19.39291 280.9007 11 2 882 890 0.6205850116 0.62615616 0.624069560 3 -19.33701 282.2064 12 4 891 899 0.6268515625 0.63241944 0.630333081 3 39.13507 138.5168 13 3 900 908 0.6331168403 0.63868273 0.637987133 3 19.33277 213.7479 15 4 1180 1189 0.8293992477 0.83565943 0.833224754 2 39.28799 132.4465 16 2 1190 1199 0.8363548611 0.84261785 0.840181453 2 -19.18810 280.6685 17 5 1200 1209 0.8433136574 0.84957639 0.848533058 NA 17.14137 196.3083 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.235413 1.371166 0.0008665562 0.06946961 0.003720177 1.478781 3 1.236650 1.372456 -0.0006143621 -1.23904154 0.008332410 4.595028 4 1.236561 1.372397 0.0061554305 1.17162529 0.017654294 4.299743 5 1.236701 1.372566 -0.0320835587 -0.81330556 0.022715805 1.763857 6 1.236703 1.372575 0.0004887262 -3.21632881 0.006211258 4.245083 8 1.235715 1.371409 -0.0015348709 0.77359258 0.007278788 3.393250 9 1.235721 1.371438 -0.0072253633 0.65973478 0.019592954 3.994063 11 1.238560 1.374516 0.0047896440 0.10296995 0.013089756 1.497293 12 1.238478 1.374497 0.0009940229 0.85097549 0.013334705 2.474798 13 1.238669 1.374511 0.0090080940 -1.26017903 0.021221970 1.383407 15 1.237635 1.373686 0.0023983549 -0.55051051 0.007783298 4.977898 16 1.237507 1.373558 -0.0025184012 1.71284647 0.008324403 4.285533 17 1.237297 1.373328 -0.0352030626 -1.97514625 0.024925514 2.679207 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.75 co2l1 = 0.472 co2l0 = 0.08" [1] "co2l0 = -143.31 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "160 out of 765 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "605 out of 1249 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "605 out of 1249 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"