[1] "2025-04-29 19:59:17 MDT" [1] "1312" "131206" "d340" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131206a.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 19:59:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.736" [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] "149 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.736" [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] "149 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:59:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:59:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:59:38 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:59:40 MDT" [1] "reading in recalculated plot titles" [1] "Removed 149 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 291 row(s) with high TFRIDGE" [1] "TEMP: 995 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:59:49 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 = -446.3" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.2" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.448 co2off = 392.08 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 8.01 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 8 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 214 222 0.1604722 0.1660360 0.1639494 3 -17.37401 297.8207 1.235226 3 4 223 231 0.1667315 0.1722988 0.1702104 3 29.14929 207.9272 1.235221 5 3 241 249 0.1806447 0.1862084 0.1855128 3 53.34105 135.7096 1.235461 7 4 494 502 0.3691991 0.3747627 0.3726763 2 29.26646 212.2155 1.234246 8 2 503 511 0.3754583 0.3810220 0.3789355 2 -16.77404 298.4932 1.234351 10 4 699 707 0.7866100 0.7921739 0.7900876 2 28.88590 204.4852 1.238929 11 2 708 717 0.7928693 0.7991290 0.7966949 2 -17.66404 297.9073 1.239102 14 2 988 995 0.9945949 0.9994670 0.9977273 1 -16.71319 299.0990 1.240342 jfcv2 co2slp o2slp co2sd o2sd 2 1.358768 0.001305991 0.04416162 0.004972244 3.729092 3 1.358691 0.010147159 2.09077274 0.022272628 6.927777 5 1.358950 -0.013628779 -4.35558585 0.029877080 4.396028 7 1.357691 -0.002475973 1.37218180 0.010539528 4.290884 8 1.357684 -0.016253207 0.07286644 0.040115829 5.798772 10 1.362626 0.002534297 2.45782068 0.007638892 8.575146 11 1.362769 0.027926739 0.13327332 0.069431178 2.769726 14 1.364096 -0.002532567 -0.85708441 0.005348335 1.800972 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.933 co2l1 = 0.444 co2l0 = 0.145" [1] "co2l0 = -142.44 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "28 out of 70 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "42 out of 868 1-min values rejected as stack air" [1] "42 out of 868 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] "LOXY data found" [1] "making html"