[1] "2025-04-29 20:30:12 MDT" [1] "1401" "140207" "d038" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140207a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84642 63 [1] 84642 [1] 84642 [1] "testing skipping spike filter" [1] 84642 [1] 84642 [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 20:30:16 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.817, ave o2scale2 = 0.744" [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] "14 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.817, ave o2scale2 = 0.744" [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] "14 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:30:16 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:30:16 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:30:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:30:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 15 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1395 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:30:39 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.457 co2off = 373.78 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.12 minutes" [1] "Average Cal: 9.08 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.12 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 104 113 0.07244444 0.07870764 0.07627134 3 -3.916727 298.9782 3 4 114 123 0.07940307 0.08566629 0.08323074 3 56.239227 154.3990 4 5 124 133 0.08636172 0.09262153 0.09157815 NA 31.281125 223.8581 5 3 134 143 0.09331713 0.09957691 0.09853336 3 35.673359 234.4232 7 4 403 412 0.28119080 0.28745437 0.28501809 2 56.261695 156.9783 8 2 413 422 0.28815052 0.29442593 0.29198402 2 -3.813031 298.6139 10 2 700 709 0.48963973 0.49597610 0.49351037 3 -4.005508 302.0970 11 4 710 719 0.49668050 0.50301513 0.50055192 3 56.336344 154.2202 12 3 720 728 0.50371924 0.51005136 0.50934799 3 35.720173 248.0558 14 4 989 998 0.69867925 0.70501128 0.70254840 2 56.571242 156.9581 15 2 999 1008 0.70571525 0.71204910 0.70958534 2 -4.904852 292.6402 16 5 1009 1018 0.71275391 0.71908889 0.71803351 NA 33.138125 223.4638 18 2 1284 1292 0.90770773 0.91404146 0.91182931 3 -4.893398 303.6167 19 4 1293 1302 0.91474552 0.92107755 0.91861464 3 56.522031 159.4668 20 3 1303 1311 0.92178125 0.92811548 0.92741155 3 35.479655 236.2801 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.221307 1.340611 0.0009191441 0.79050076 0.004353511 2.676365 3 1.220913 1.340197 0.0036994709 0.06847196 0.018972899 2.682460 4 1.220666 1.339911 -0.0361896839 -0.37398784 0.025632621 2.037761 5 1.220296 1.339541 -0.0005127521 -1.38219657 0.005254330 2.848909 7 1.217852 1.336996 -0.0029749453 1.92082077 0.010572160 5.440508 8 1.217807 1.336935 -0.0038970033 2.19233335 0.013791941 6.208539 10 1.221633 1.341078 0.0059134805 2.04082519 0.017097359 7.260633 11 1.221706 1.341198 0.0029672976 1.99131242 0.008553404 5.502091 12 1.221821 1.341443 -0.0067450901 -1.94062075 0.018522300 1.973249 14 1.228892 1.348803 0.0020963123 3.47483799 0.013959621 11.380651 15 1.229422 1.349424 0.0169115018 3.36751867 0.042255440 11.031318 16 1.229674 1.349681 0.0049358342 -8.20285402 0.003535534 11.294461 18 1.234454 1.354765 -0.0136915716 1.21402142 0.034188518 9.978844 19 1.234359 1.354779 0.0089315585 -0.01168014 0.027203885 6.890545 20 1.234725 1.355363 0.0023661780 4.62725265 0.014976114 4.737421 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.603 co2l1 = 0.455 co2l0 = 0.011" [1] "co2l0 = -148.59 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "191 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "89 out of 1191 1-min values rejected as stack air" [1] "89 out of 1191 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"