[1] "2025-04-30 02:14:10 MDT" [1] "1701" "170112" "d012" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170112a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 43982 63 [1] 43982 [1] 43982 [1] "testing skipping spike filter" [1] 43982 [1] 43982 [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 02:14:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.045, ave o2scale2 = 0.852" [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] "69 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.045, ave o2scale2 = 0.852" [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 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "69 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:14:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:14:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:14:16 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:14:17 MDT" [1] "reading in recalculated plot titles" [1] "Removed 69 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 41 row(s) with variable TFCELL" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 620 36 TRUE" [1] "Removed 36 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:14:19 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [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 CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.965 co2off = 425.48 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.37 minutes" [1] "Average Cal: 92.51 minutes" [1] "Shortest Cal: 1.05 minutes" [1] "Longest Cal: 771.94 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 14 23 0.5758531 0.5823990 0.5798713 2 -38.81600 237.6415 4 4 24 33 0.5831356 0.5897155 0.5871489 2 -16.28306 114.2091 7 4 283 290 0.7780041 0.7830760 0.7812895 2 -15.10692 110.7245 8 2 291 299 0.7837929 0.7895765 0.7874059 2 -37.44498 231.6465 10 2 565 573 0.9855749 0.9913847 0.9891968 2 -37.51796 232.3067 11 4 574 582 0.9921217 0.9979818 0.9957643 2 -15.17668 113.5530 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 0.9587885 1.176113 0.019711250 0.2427605 0.050550430 9.140837 4 0.9585309 1.176272 0.016659456 3.2126356 0.043684390 11.458383 7 0.9572198 1.174920 0.003138933 1.9057316 0.006640273 5.587056 8 0.9572204 1.175006 -0.003167696 -1.5252530 0.008346010 4.552378 10 0.9573865 1.175525 -0.001563493 -0.4576974 0.003735538 11.676298 11 0.9573496 1.175426 0.002323981 0.4701855 0.007085640 8.573340 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 421.068 co2l1 = 0.96 co2l0 = 0" [1] "co2l0 = -139.73 co2l1 = 0.208" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 160 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "131 out of 485 1-min values rejected as stack air" [1] "131 out of 485 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"