[1] "2025-04-29 23:39:07 MDT" [1] "1504" "150414" "d104" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150414a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 23:39:11 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.766" [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] "66 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.766" [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] "66 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:39:11 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:39:11 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:39:33 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:39:35 MDT" [1] "reading in recalculated plot titles" [1] "Removed 66 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1370 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:39:40 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -478.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.953 co2off = 413.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.48 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [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 6 0.001360503 0.004837963 0.003794654 1 -32.981766 266.9291 3 2 287 296 0.200313860 0.206574074 0.204139616 3 -33.083672 268.6612 4 4 297 306 0.207269589 0.213532407 0.211097092 3 -4.080797 127.0244 5 5 307 316 0.214227836 0.220490741 0.219447360 NA -14.912719 183.4728 6 3 317 326 0.221187934 0.227449103 0.226405758 3 -15.542289 218.5904 8 4 587 596 0.408995370 0.415255411 0.412820819 2 -4.064719 131.6818 9 2 597 606 0.415950723 0.422210301 0.419776005 2 -33.045203 270.9101 11 2 858 865 0.617682002 0.623942130 0.621855343 3 -33.015561 275.8743 12 4 866 874 0.624637674 0.630897280 0.628611830 3 -4.022347 122.4111 13 3 875 884 0.631592650 0.637851968 0.636808796 3 -15.486914 218.7047 15 4 1143 1150 0.827070457 0.832633912 0.830895206 2 -3.974188 119.9803 16 2 1151 1154 0.834723900 0.839592130 0.839244401 2 -32.976656 279.7212 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.173942 1.305234 -4.524481e-03 9.652156e-01 6.109328e-03 1.3111950 3 1.169026 1.299518 -2.122886e-03 1.051595e+00 5.947478e-03 3.7102600 4 1.168802 1.299261 2.263377e-03 9.586022e-01 7.708468e-03 3.1414460 5 1.168607 1.299038 -1.154326e-02 -3.565592e-01 8.175922e-03 0.6355225 6 1.168529 1.298903 3.317312e-03 -2.607013e-01 9.274577e-03 0.6638687 8 1.170842 1.301369 1.401199e-03 2.235255e-01 4.155327e-03 2.5054504 9 1.171322 1.301902 -8.453995e-04 6.302358e-01 3.173859e-03 5.2234421 11 1.174741 1.305628 -2.400352e-03 5.322807e+00 5.705215e-03 17.3882284 12 1.174290 1.305047 3.783799e-03 5.679208e-01 1.081333e-02 5.6018462 13 1.174013 1.304712 3.210508e-03 3.969401e+00 9.316660e-03 5.7828245 15 1.179191 1.310422 1.737018e-03 -1.737763e-01 4.045960e-03 1.0544262 16 1.179843 1.311169 6.240899e-05 5.442396e-14 4.419417e-05 0.0000000 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.071 co2l1 = 0.952 co2l0 = 0.026" [1] "co2l0 = -140.99 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "56 out of 329 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "273 out of 1204 1-min values rejected as stack air" [1] "261 out of 1091 Line 1 1-min values rejected as stack air" [1] "12 out of 113 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"