[1] "2025-04-29 21:02:29 MDT" [1] "1404" "140411" "d101" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140411a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 21:02:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.746" [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] "52 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.746" [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] "52 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:02:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:02:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:02:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:02:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 52 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1384 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:02:57 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 = -476.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.1" [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 = 0.4 co2off = 384.51 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.11 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 6 [4,] 8 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 260 269 0.1815324 0.1877918 0.1853574 2 78.991523 140.3397 1.223474 3 2 270 279 0.1884873 0.1947473 0.1923126 2 9.533180 269.7152 1.223647 5 2 560 569 0.3902284 0.3964879 0.3940536 3 9.629266 268.1894 1.220045 6 4 570 579 0.3971850 0.4034585 0.4010139 3 78.686055 129.1141 1.219860 7 3 580 589 0.4041620 0.4104306 0.4093866 3 55.013359 202.0924 1.219795 10 2 850 859 0.6059885 0.6122477 0.6098135 1 9.662688 280.4746 1.218237 11 5 860 865 0.6136424 0.6178166 0.6188619 NA 50.317625 201.8094 1.217968 13 2 1124 1133 0.8077478 0.8140072 0.8115732 3 9.431430 275.4792 1.220017 14 4 1134 1143 0.8147026 0.8209625 0.8185279 3 78.370625 131.8476 1.220074 15 3 1144 1152 0.8216574 0.8279167 0.8272213 3 54.741475 208.5468 1.220174 jfcv2 co2slp o2slp co2sd o2sd 2 1.343772 0.0043047988 2.0343633 0.014564854 9.5346227 3 1.343930 -0.0076793683 4.5944081 0.021390044 13.0900263 5 1.340051 -0.0012896946 0.7430921 0.005513756 5.1676704 6 1.339852 -0.0042719982 0.9392816 0.018908185 4.4296501 7 1.339837 -0.0019724013 12.4634432 0.005416343 18.6622908 10 1.338114 -0.0087180846 0.5542815 0.022708139 15.5566778 11 1.337856 -0.1104662177 1.4633465 0.240893865 3.1149621 13 1.340123 0.0016946236 2.3830258 0.006229380 6.4741596 14 1.340157 -0.0009152258 0.8227390 0.014687899 2.4742922 15 1.340392 -0.0031191414 0.3468233 0.014814273 0.3473218 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.819 co2l1 = 0.4 co2l0 = -0.2" [1] "co2l0 = -144.69 co2l1 = 0.231" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "147 out of 465 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "318 out of 1239 1-min values rejected as stack air" [1] "318 out of 1239 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"