[1] "2025-04-29 22:11:35 MDT" [1] "1409" "141012" "d285" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141012a.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 22:11:39 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.858, 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] "16 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.858, 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] "16 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:11:40 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:11:40 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:11:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:11:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 16 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1420 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:12:03 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.48 co2off = 387.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.95 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 107 116 0.07465483 0.08091782 0.07848115 2 23.677961 137.1500 3 2 117 126 0.08161343 0.08787274 0.08543841 2 -33.894781 285.6587 5 2 403 412 0.28334491 0.28960417 0.28717008 3 -34.010695 286.3732 6 4 413 422 0.29029977 0.29656264 0.29412795 3 23.481188 146.2472 7 5 423 432 0.29725810 0.30352934 0.30248625 NA 2.032125 206.1393 8 3 433 442 0.30422486 0.31048791 0.30944485 3 3.937773 214.0064 12 4 703 712 0.49203759 0.49830014 0.49586581 2 23.183859 133.3608 13 2 713 721 0.49899549 0.50456302 0.50247583 2 -34.355429 282.4893 16 2 1001 1010 0.70073510 0.70699514 0.70456072 3 -34.502125 280.8792 17 4 1011 1020 0.70769051 0.71394965 0.71151552 3 23.030508 135.1222 18 3 1021 1030 0.71464502 0.72090402 0.71986087 3 3.528305 218.3750 20 4 1292 1301 0.90946149 0.91572338 0.91328947 2 23.159602 139.6744 21 2 1302 1311 0.91641901 0.92267844 0.92024443 2 -34.373039 281.7419 22 5 1312 1321 0.92337387 0.92963681 0.92859190 NA 1.875437 202.7648 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.175385 1.305711 -0.0039777954 0.9008691 0.010199239 4.682198 3 1.175180 1.305499 -0.0086193920 0.2945071 0.023617346 4.762148 5 1.170855 1.300777 -0.0022325883 0.7000866 0.006202897 4.424709 6 1.170405 1.300285 -0.0056849306 -0.2428182 0.016122024 7.181726 7 1.170128 1.299967 -0.0124823167 -3.3942894 0.008838835 4.732910 8 1.169815 1.299601 -0.0054887342 1.4657975 0.013647587 4.452118 12 1.164030 1.293222 -0.0016738822 0.2987369 0.006318177 8.930963 13 1.163913 1.293054 -0.0039831676 -0.3688680 0.009997228 2.622705 16 1.157988 1.286569 -0.0036741230 1.5439110 0.010035706 7.445171 17 1.157999 1.286548 0.0044476783 -0.3910925 0.013225316 2.465376 18 1.158139 1.286715 0.0010675885 -3.7009211 0.005239407 4.941096 20 1.160352 1.289260 0.0007124813 0.1870968 0.005718951 4.278200 21 1.160787 1.289796 -0.0032786205 0.7625328 0.008870531 3.472837 22 1.160858 1.289862 -0.0163586414 -0.2249369 0.011578874 2.129164 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 393.067 co2l1 = 0.48 co2l0 = 0.093" [1] "co2l0 = -143.98 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "55 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "80 out of 1223 1-min values rejected as stack air" [1] "35 out of 1132 Line 1 1-min values rejected as stack air" [1] "45 out of 91 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"