[1] "2025-04-29 19:11:44 MDT" [1] "1306" "130703" "d184" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130703a.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 19:11:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.778, ave o2scale2 = 0.721" [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] "127 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.778, ave o2scale2 = 0.721" [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] "126 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:11:49 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:11:49 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:12:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:12:17 MDT" [1] "reading in recalculated plot titles" [1] "Removed 126 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1309 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:12:35 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 = -447.5" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.9" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.308 co2off = 388.34 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.94 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 5 0.00308397 0.005865856 0.005170255 1 -16.79150 252.42343 3 2 238 247 0.20142705 0.207689815 0.205253512 3 -15.73564 246.32404 4 4 248 255 0.20838545 0.213261516 0.211522714 3 50.93254 165.72654 6 3 265 272 0.22370090 0.228572917 0.228225159 3 85.94547 90.53363 8 4 522 531 0.41020602 0.416468750 0.414031474 2 50.99100 160.82382 9 2 532 541 0.41716435 0.423423611 0.420989431 2 -16.02423 246.75162 11 2 786 795 0.61894444 0.625207205 0.622770020 3 -15.75803 244.55758 12 4 796 805 0.62590278 0.632164207 0.629728092 3 51.31994 154.40568 13 3 806 815 0.63286111 0.639120370 0.638077033 3 86.20700 80.42249 15 4 1072 1079 0.82768802 0.832560041 0.830821243 2 51.29458 155.76582 16 2 1080 1088 0.83464604 0.840906047 0.838819573 2 -15.45706 250.12449 17 5 1089 1096 0.84160133 0.846473322 0.846125550 NA 41.49006 143.00600 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.289323 1.391376 -9.671921e-03 -3.2230839 0.009860749 3.357709 3 1.287108 1.389110 -2.324565e-02 1.5171420 0.059093201 4.840911 4 1.287015 1.389030 2.167347e-03 2.5845188 0.016716369 7.058631 6 1.287121 1.389203 -1.017308e-03 1.4882124 0.005692340 1.053947 8 1.284640 1.386747 -3.778602e-03 0.9782555 0.011369406 2.902461 9 1.284460 1.386577 -2.775802e-03 0.1351167 0.010421837 4.990658 11 1.283972 1.385835 2.190557e-02 -2.6619317 0.055585459 8.049695 12 1.283918 1.385749 5.528622e-03 -0.7923300 0.018810616 12.361166 13 1.283645 1.385503 -8.260796e-03 5.6731889 0.020707088 8.387554 15 1.281830 1.383700 3.195255e-05 1.9818230 0.005850169 5.063862 16 1.282228 1.384036 1.908495e-02 0.1784751 0.047835934 2.972167 17 1.282302 1.384160 -2.322165e-01 8.9368041 0.494179252 6.329280 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.232 co2l1 = 0.307 co2l0 = 0.094" [1] "co2l0 = -132.34 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "10 out of 10 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1144 1-min values rejected as stack air" [1] "0 out of 1144 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"