[1] "2025-04-30 03:11:15 MDT" [1] "1706" "170729" "d210" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170729a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 40380 63 [1] 40380 [1] 40380 [1] "testing skipping spike filter" [1] 40380 [1] 40380 [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 03:11:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.874, ave o2scale2 = 0.949" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "110 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.874, ave o2scale2 = 0.949" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "112 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:11:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:11:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:11:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:11:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 112 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 561 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:11:25 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 = 4.45 co2off = 424.15 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.95 minutes" [1] "Average Cal: 6.31 minutes" [1] "Shortest Cal: 1.13 minutes" [1] "Longest Cal: 7.97 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 5 6 [3,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 3 1 6 0.4786023 0.4841287 0.4853124 3 -6.208031 339.4592 1.134781 2 2 7 10 0.4864960 0.4888590 0.4884651 3 -5.407812 330.5484 1.135153 3 4 11 15 0.4967614 0.4999121 0.4991244 3 -2.651917 165.3425 1.136826 4 5 16 17 0.5062307 0.5070184 0.5185931 NA -4.021547 217.7138 1.137939 6 4 217 224 0.6855255 0.6910477 0.6890735 2 -2.622135 160.0652 1.143983 7 2 225 232 0.6918354 0.6973707 0.6953946 2 -5.363125 318.0178 1.144181 9 2 458 465 0.8939060 0.8994284 0.8974584 2 -5.369188 330.3632 1.146399 10 4 466 471 0.9002160 0.9057470 0.9045601 2 -2.625281 160.3591 1.145824 jfcv2 co2slp o2slp co2sd o2sd 1 1.045798 -0.0007276900 -9.1037738 0.002300645 21.944088 2 1.046019 -0.0016530747 -7.5872972 0.001325825 6.085284 3 1.047501 -0.0011020485 -13.2193263 0.001252082 15.348388 4 1.048430 -0.0080362850 0.2133213 0.069072731 2.805680 6 1.053750 -0.0006734622 3.1887817 0.001609259 14.011790 7 1.053841 0.0017272452 -1.1802450 0.003777607 24.144964 9 1.055865 0.0012269000 4.0063136 0.002720581 10.512940 10 1.055251 -0.0009417157 3.1280722 0.001454608 6.003910 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 420.711 co2l1 = 4.433 co2l0 = -0.146" [1] "co2l0 = -159.9 co2l1 = 0.214" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "12 out of 102 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "90 out of 472 1-min values rejected as stack air" [1] "90 out of 472 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"