[1] "2025-04-29 21:29:35 MDT" [1] "1406" "140708" "d189" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140708a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86040 63 [1] 86040 [1] 86040 [1] "testing skipping spike filter" [1] 86040 [1] 86040 [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 21:29:39 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.738" [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] "12 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.738" [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] "12 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:29:40 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:29:40 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:29:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:29:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 12 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 996 row(s) with low FLSP" [1] "TEMP: 425 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:30:03 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 0.471 co2off = 379.22 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 29.49 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 299.63 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 133 142 0.09298090 0.09924005 0.09680597 3 -15.58520 277.9992 3 4 143 152 0.09993938 0.10619852 0.10376443 3 43.16750 136.3135 4 3 153 162 0.10689404 0.11315388 0.11211053 3 23.31029 218.6621 6 4 312 321 0.30171528 0.30797801 0.30554149 2 43.15140 136.4086 7 2 322 331 0.30867361 0.31493299 0.31249850 2 -15.53756 288.3653 8 5 332 341 0.31562847 0.32189120 0.32084708 NA 21.19147 200.6193 9 2 342 351 0.51044256 0.51670564 0.51427104 3 -15.48654 269.0101 10 4 352 360 0.51810000 0.52366508 0.52157754 3 43.17121 138.1557 11 3 361 368 0.52436328 0.52923307 0.52888448 3 23.27535 207.6460 12 4 369 378 0.71888333 0.72514647 0.72271090 2 43.03974 146.0572 13 2 379 396 0.72584184 0.93391563 0.84284041 2 -15.61068 276.5188 14 4 397 406 0.93461111 0.94087387 0.93843954 2 43.04953 128.9733 15 5 407 416 0.94156953 0.94783244 0.94678941 NA 21.15116 195.4980 16 3 417 425 0.94853154 0.95409641 0.95340031 2 23.14499 230.2592 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.210317 1.343991 -0.0005854835 1.70046469 0.004853633 4.421150 3 1.210817 1.344558 0.0119713551 -0.83228200 0.033183355 6.709171 4 1.211009 1.344798 -0.0050936624 -0.75378919 0.013138171 1.397657 6 1.218495 1.353483 0.0006150076 0.58827155 0.008860837 5.793165 7 1.218821 1.353852 -0.0026651397 -0.82077436 0.011460043 11.699979 8 1.219002 1.354116 -0.0024338492 5.23697539 0.001723573 7.846623 9 1.226008 1.362108 0.0029108775 0.16168635 0.008729500 14.073921 10 1.224585 1.360503 0.0019121461 0.39320210 0.005828240 2.874055 11 1.224844 1.360776 -0.0038814455 2.65833633 0.009409243 1.887168 12 1.226619 1.362370 0.0048297369 -2.36542396 0.013311240 13.229714 13 1.226090 1.361671 0.0001506416 -0.04426103 0.024676812 17.189606 14 1.225242 1.360638 0.0007826753 -0.95387257 0.007293053 4.301006 15 1.225237 1.360607 0.0014357054 0.89562749 0.001016466 1.425047 16 1.225215 1.360662 -0.0023709944 3.51975674 0.005577511 3.527511 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.009 co2l1 = 0.469 co2l0 = 0.068" [1] "co2l0 = -143.37 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 269 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 269 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"