[1] "2025-04-30 03:12:01 MDT" [1] "1706" "170731" "d212" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170731a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 03:12:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.953" [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] "75 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.953" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "78 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:12:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:12:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:12:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:12:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 78 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1326 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:12:28 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.455 co2off = 424.06 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 8 minutes" [1] "Shortest Cal: 5.12 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 3 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 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 195 203 0.1422039 0.1479050 0.1457706 3 -5.625241 337.5513 1.121029 3 4 204 212 0.1486165 0.1543219 0.1521758 3 -2.850196 162.4098 1.121549 4 3 213 220 0.1550331 0.1607227 0.1603671 3 -6.423786 311.3492 1.121999 6 4 468 474 0.3500978 0.3557997 0.3543741 2 -2.785850 142.2115 1.133543 7 2 475 483 0.3565113 0.3622029 0.3600685 2 -5.545080 299.0928 1.134126 10 2 718 726 0.5580485 0.5637481 0.5616074 2 -5.469187 314.0274 1.145884 11 4 727 734 0.5644612 0.5701544 0.5680193 2 -2.717879 184.5713 1.146086 14 4 1005 1013 0.7660240 0.7717163 0.7695815 2 -2.608598 168.1495 1.153562 15 2 1014 1022 0.7724281 0.7781274 0.7759930 2 -5.349179 333.9713 1.153915 17 2 1294 1302 0.9739785 0.9796709 0.9775359 3 -5.286634 332.5422 1.156015 18 4 1303 1311 0.9803826 0.9860850 0.9839459 3 -2.558777 163.7862 1.156047 20 3 1318 1326 0.9932014 0.9989000 0.9981884 3 -6.079187 318.0496 1.156245 jfcv2 co2slp o2slp co2sd o2sd 2 1.033485 -1.743037e-04 1.007852e+00 0.0009124633 5.907298 3 1.033837 4.019067e-04 -1.659864e+00 0.0014879851 9.579411 4 1.034508 2.547321e-04 3.997510e-14 0.0013371963 0.000000 6 1.044598 9.801369e-04 -8.562537e+00 0.0020759975 24.957764 7 1.044886 -1.154160e-04 3.856872e+00 0.0019591247 14.145007 10 1.055474 1.433769e-03 7.317200e+00 0.0032544041 23.826724 11 1.055472 1.004044e-03 2.518096e+00 0.0029459599 9.063969 14 1.062063 -6.317141e-04 4.582556e+00 0.0014829136 12.579205 15 1.062286 -1.093619e-03 -1.516840e+00 0.0029422454 4.994986 17 1.064088 -1.981937e-04 1.558429e+00 0.0008255590 7.565752 18 1.064016 -8.558250e-06 -5.663272e-01 0.0003950493 6.952126 20 1.064031 1.675391e-03 3.261701e+00 0.0039479029 3.375635 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 421.009 co2l1 = 4.427 co2l0 = -0.159" [1] "co2l0 = -163.28 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "59 out of 640 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "581 out of 1151 1-min values rejected as stack air" [1] "581 out of 1151 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"