[1] "2025-04-30 02:48:37 MDT" [1] "1704" "170428" "d118" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170428a.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 02:48:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.281, ave o2scale2 = 0.887" [1] "Removing 3 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] "135 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.281, ave o2scale2 = 0.887" [1] "Removing 3 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] "134 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:48:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:48:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:49:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:49:03 MDT" [1] "reading in recalculated plot titles" [1] "Removed 134 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1269 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:49:08 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 = 4.479 co2off = 371.61 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 8.11 minutes" [1] "Shortest Cal: 7.17 minutes" [1] "Longest Cal: 8.21 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 6 [3,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 188 194 0.1712024 0.1769054 0.1749086 3 5.114813 332.4180 0.8129093 3 4 195 203 0.1776168 0.1833082 0.1811735 3 7.842500 130.4330 0.8121400 4 3 204 212 0.1840201 0.1897176 0.1890062 3 4.306536 313.5733 0.8114139 10 2 720 728 0.5870408 0.5927333 0.5905981 3 5.127679 322.3546 0.7734539 11 4 729 737 0.5934448 0.5991461 0.5970104 3 7.855589 146.3630 0.7725072 12 3 738 745 0.5998578 0.6048377 0.6044821 3 4.323802 327.9705 0.7714688 14 4 995 1003 0.7949705 0.8006627 0.7985278 2 7.881839 163.8679 0.7520386 15 2 1004 1012 0.8013743 0.8070690 0.8049330 2 5.159429 321.2518 0.7514495 jfcv2 co2slp o2slp co2sd o2sd 2 1.129352 -0.0016582634 3.8648540 0.004718853 15.608164 3 1.129304 -0.0002986663 9.9997655 0.003050572 25.307174 4 1.129342 -0.0012393887 27.4286121 0.003207425 28.322849 10 1.127698 0.0008213069 5.1951189 0.002805646 19.067114 11 1.127527 -0.0004718034 0.5180714 0.001473223 17.584694 12 1.127453 -0.0003469355 -4.5523679 0.002032323 3.297205 14 1.126861 0.0016686601 -0.4491383 0.003806836 6.733825 15 1.127020 0.0006984860 -2.9917981 0.003263679 25.162638 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.978 co2l1 = 4.46 co2l0 = 0.448" [1] "co2l0 = -154.89 co2l1 = 0.199" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "162 out of 1128 1-min values rejected as stack air" [1] "162 out of 1128 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"