[1] "2025-04-30 02:57:42 MDT" [1] "1704" "170518" "d138" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170518a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 02:57:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.871, ave o2scale2 = 0.899" [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] "170 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.871, ave o2scale2 = 0.899" [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] "170 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:57:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:57:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:58:07 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:58:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 170 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1233 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:58:11 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 = 4.474 co2off = 370.59 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.98 minutes" [1] "Shortest Cal: 7.17 minutes" [1] "Longest Cal: 8.21 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 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 128 136 0.09288854 0.09858084 0.09644585 2 8.587804 170.7791 3 2 137 145 0.09929230 0.10499225 0.10285531 2 5.854080 331.9753 5 2 417 425 0.30082228 0.30652376 0.30438937 3 5.867179 337.5255 6 4 426 434 0.30723498 0.31293750 0.31079485 3 8.596964 170.0450 8 3 444 452 0.32005119 0.32575110 0.32503980 3 5.068063 321.6287 10 4 700 708 0.50870278 0.51440295 0.51226478 2 8.589625 170.3511 11 2 709 717 0.51511473 0.52080486 0.51867122 2 5.864170 332.6252 13 2 950 958 0.71662086 0.72232156 0.72018014 3 5.911063 336.5126 14 4 959 965 0.72303304 0.72801322 0.72616332 3 8.640455 170.4878 15 3 966 973 0.73014705 0.73513119 0.73477507 3 5.106573 317.3798 17 4 1133 1140 0.92521649 0.93019592 0.92841741 2 8.670302 175.3154 18 2 1141 1146 0.93090735 0.93660344 0.93447016 2 5.939557 331.4968 19 5 1147 1154 0.93731453 0.94301195 0.94265527 NA 7.578437 213.2310 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.151096 1.115713 0.0009932236 2.649170e+00 0.002441351 6.7779561 3 1.151042 1.115578 -0.0004371804 1.378160e+00 0.001312854 3.3430259 5 1.150839 1.115637 -0.0010262170 2.547492e+00 0.002297935 6.7895227 6 1.150934 1.115651 0.0013928319 1.222681e+00 0.003189309 3.3926577 8 1.151028 1.115645 -0.0003852683 2.867242e+00 0.001386787 2.9669515 10 1.151038 1.115808 0.0006393052 1.288776e+00 0.002282177 3.3469816 11 1.151040 1.115703 0.0008543294 2.269046e+00 0.002100259 6.7130918 13 1.147620 1.112161 0.0011299564 1.258730e+00 0.002867744 3.8142730 14 1.147300 1.111740 0.0024642781 1.910090e+00 0.005354767 4.2649553 15 1.147098 1.111568 -0.0005347589 -1.833366e-01 0.001066842 0.1329605 17 1.137788 1.102415 0.0004165881 8.258364e-01 0.001055060 4.0163082 18 1.137699 1.102353 0.0025047472 3.160105e+00 0.007653329 9.8114037 19 1.137662 1.102361 -0.0869688961 7.387610e-15 0.063020892 0.0000000 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.627 co2l1 = 4.457 co2l0 = 0.264" [1] "co2l0 = -163.48 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "42 out of 110 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "68 out of 1063 1-min values rejected as stack air" [1] "68 out of 1063 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"