[1] "2025-04-29 21:37:46 MDT" [1] "1406" "140722" "d203" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140722a.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 21:37:50 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.743" [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 = 0.825, ave o2scale2 = 0.743" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "2 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:37:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:37:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:38:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:38:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:38:18 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 = -476.7" [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 = 0.473 co2off = 386.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 116 125 0.08194850 0.08821181 0.0857755 2 38.77704 140.0889 3 2 126 135 0.08890735 0.09517014 0.0927350 2 -19.66967 284.9935 4 5 136 145 0.09586571 0.10212847 0.1010853 NA 16.55169 199.2010 6 2 416 425 0.29072347 0.29698333 0.2945493 3 -19.79040 283.3942 7 4 426 435 0.29767876 0.30394676 0.3015063 3 38.62690 137.3512 8 3 436 445 0.30464233 0.31090503 0.3098617 3 18.81947 217.9828 10 4 716 725 0.49946777 0.50575353 0.5033083 2 38.54285 138.0729 11 2 726 735 0.50645211 0.51271988 0.5102850 2 -19.88114 281.9202 13 2 1016 1025 0.70832002 0.71459494 0.7121517 3 -19.88388 281.2003 14 4 1026 1035 0.71529051 0.72156247 0.7191232 3 38.47141 135.5106 15 5 1036 1045 0.72225787 0.72852546 0.7274823 NA 16.25225 194.3083 16 3 1046 1055 0.72922911 0.73550463 0.7344589 3 18.62687 221.0302 18 4 1316 1325 0.91726424 0.92352763 0.9210916 2 38.48927 135.9604 19 2 1326 1335 0.92422300 0.93048611 0.9280508 2 -19.94334 280.2781 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.220555 1.355153 3.013329e-03 -1.780901847 0.010041095 10.615481 3 1.220437 1.355057 -2.895961e-03 -1.274373735 0.013027690 17.546750 4 1.220355 1.354919 1.622499e-03 1.609781541 0.001149049 2.748702 6 1.216443 1.350696 -2.360418e-03 1.640171348 0.006529803 4.745478 7 1.216269 1.350503 6.302016e-03 0.080219751 0.016579689 3.214485 8 1.216179 1.350422 -1.836002e-03 1.064809965 0.005394380 2.331252 10 1.212349 1.346226 1.405448e-03 -0.035566300 0.008880339 2.111692 11 1.212628 1.346542 -7.813767e-04 0.189205218 0.013002050 4.838048 13 1.209041 1.342605 -6.452119e-03 1.417275428 0.019443813 3.791202 14 1.208687 1.342192 3.530693e-05 0.254583280 0.007815035 1.059163 15 1.208436 1.341880 -2.121641e-02 -4.508822976 0.015026019 5.947047 16 1.208440 1.341877 2.743500e-03 -0.009735121 0.008785034 2.773234 18 1.206911 1.340255 2.379789e-03 0.857128636 0.006580269 3.550751 19 1.206922 1.340271 -3.844250e-03 0.973672860 0.012130105 2.819060 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.01 co2l1 = 0.473 co2l0 = 0.094" [1] "co2l0 = -143.91 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "190 out of 575 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "385 out of 1242 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "385 out of 1242 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"