[1] "2025-04-29 16:34:00 MDT" [1] "1206" "120612" "d164" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120612c.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120612d.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85337 63 [1] 85337 [1] 85337 [1] "testing skipping spike filter" [1] 85337 [1] 85337 [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 16:34:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.78, ave o2scale2 = 0.786" [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] "241 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.78, ave o2scale2 = 0.786" [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] "241 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:34:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:34:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:34:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:34:16 MDT" [1] "reading in recalculated plot titles" [1] "Removed 241 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 2 row(s) with variable TFCELL" [1] "TEMP: 1177 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:34:23 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 = -450.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.95 O2 = -543.5" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339495 description: WT1 CO2 = 394.28 O2 = -550.6" [1] "position 6 cylinder CC339490 description: WT2 CO2 = 396.41 O2 = -582.4" [1] "Nominal linear calibrations:" [1] "co2scl = 0.991 co2off = 380.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.54 minutes" [1] "Average Cal: 7.49 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 11.05 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Removed 1 anomalous calibration row(s)" [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 [6,] 13 14 [7,] 15 16 [8,] 17 18 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 4 0.00130816 0.003401794 0.003053313 2 18.967156 -70.92685 2 2 5 10 0.00409945 0.007589988 0.006543330 2 -12.359453 88.61101 4 2 144 154 0.12488417 0.131862384 0.129070769 3 -12.340111 95.37844 5 4 155 162 0.13255975 0.140236516 0.136630777 3 18.978948 -67.80807 6 3 163 174 0.14093383 0.148609288 0.146864844 3 8.372294 -28.70903 8 4 294 302 0.25052078 0.256105816 0.254012483 2 19.025196 -64.68141 9 2 303 310 0.25680330 0.262387297 0.260408594 2 -12.285527 91.53471 12 2 445 450 0.37822523 0.381710532 0.380665357 3 -12.264281 90.48496 13 4 451 460 0.38240697 0.388686719 0.386244640 3 19.059234 -70.48713 14 3 461 465 0.39287405 0.395665683 0.396362674 3 8.532562 14.33920 16 4 590 599 0.50103614 0.507316464 0.504873633 2 19.068141 -70.88912 17 2 600 605 0.50801499 0.511504977 0.510457921 2 -12.227297 84.40225 19 2 733 740 0.62803116 0.632911082 0.631169425 2 -12.182052 89.09668 20 4 741 746 0.63360883 0.639887384 0.638143757 2 19.101703 -67.11850 23 4 874 883 0.75221837 0.758495602 0.756055056 2 19.089242 -66.74207 24 2 884 893 0.75919392 0.765474248 0.763031963 2 -12.251875 91.86046 26 2 1054 1063 0.87779954 0.884075781 0.881635720 2 -12.286984 88.23329 27 4 1064 1073 0.88477494 0.891057350 0.888613835 2 19.073641 -65.98653 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.274407 1.264425 0.0011832109 0.87716727 0.0008396893 0.6224993 2 1.274633 1.264683 -0.0007032268 -2.29818174 0.0016018991 3.2452855 4 1.277276 1.267473 -0.0018988909 0.55082541 0.0053415363 2.8964904 5 1.277184 1.267369 0.0026984373 -0.11272753 0.0116771958 1.9487612 6 1.277369 1.267504 0.0245880286 12.57588979 0.0754275490 23.9485198 8 1.279453 1.269948 0.0002870043 -0.34938615 0.0057495956 2.4279392 9 1.279775 1.270311 -0.0028664869 0.69747682 0.0085396852 3.5429527 12 1.282335 1.272998 -0.0003858658 4.74910933 0.0024798668 7.0645826 13 1.282261 1.272969 0.0007804565 -0.50251363 0.0052679063 2.8435216 14 1.282520 1.273211 0.0109157297 12.93011561 0.0115871359 14.9019810 16 1.283010 1.273700 -0.0021120780 0.57703993 0.0060427005 2.8128489 17 1.283049 1.273746 -0.0044947035 0.14210879 0.0067433175 2.1620032 19 1.284717 1.275472 -0.0024793149 2.12918694 0.0052987936 4.4183606 20 1.284591 1.275342 0.0029105999 0.22276503 0.0094090181 7.2219036 23 1.284840 1.275685 -0.0028786835 1.15021734 0.0081906304 4.3246083 24 1.284892 1.275748 -0.0029766748 -0.08476979 0.0100006138 3.9521534 26 1.285198 1.275999 -0.0013590518 2.08306890 0.0038264163 6.2140987 27 1.285144 1.275946 0.0021182109 0.23898153 0.0064526737 2.6511559 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.472 co2l1 = 0.99 co2l0 = 0.064" [1] "co2l0 = -96.99 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "162 out of 853 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "691 out of 908 1-min values rejected as stack air" [1] "691 out of 908 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"