[1] "2025-04-29 17:09:38 MDT" [1] "1211" "121025" "d299" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121025a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 17:09:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.807" [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] "257 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.807" [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] "259 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:09:43 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:09:43 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:10:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:10:03 MDT" [1] "reading in recalculated plot titles" [1] "Removed 259 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1177 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:10:15 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -449.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.451 co2off = 366.36 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.28 minutes" [1] "Shortest Cal: 3.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 65 74 0.04686366 0.05312963 0.05069474 3 -16.41895 120.97670 4 4 75 84 0.05382529 0.06008791 0.05765366 3 52.10341 -35.87378 5 5 85 94 0.06078628 0.06704910 0.06600344 NA 19.17981 14.54784 6 3 95 104 0.06774491 0.07400747 0.07296275 3 28.69902 29.99984 9 4 364 373 0.25560067 0.26185995 0.25942584 2 52.27229 -41.18055 10 2 374 383 0.26255556 0.26881499 0.26638076 2 -16.43446 120.81310 13 2 617 623 0.46649407 0.47067014 0.46927925 3 -15.97379 118.50688 14 4 624 631 0.47275920 0.47762847 0.47588972 3 52.40673 -38.07241 15 3 632 635 0.47832407 0.48041363 0.48458920 3 29.00219 33.17452 18 4 846 855 0.67313981 0.67940278 0.67696816 2 52.65421 -40.04419 19 2 856 860 0.68009838 0.68357541 0.68264821 2 -15.56331 119.15867 20 5 861 870 0.68705660 0.69331944 0.69227523 NA 19.83797 11.16346 23 2 1058 1061 0.88187054 0.88396033 0.88361097 2 -16.57809 116.46760 24 4 1062 1067 0.88952439 0.89439641 0.89300557 2 52.84110 -36.89115 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.258315 1.237004 -0.0058252588 0.10632831 0.015626705 2.6095482 4 1.258242 1.236932 -0.0005913817 0.83238576 0.007156650 2.6633217 5 1.258140 1.236823 0.0028569063 0.14045004 0.002032932 0.3121547 6 1.257867 1.236535 0.0088698929 2.93526459 0.022858794 4.0016810 9 1.257920 1.236586 -0.0014288291 -0.08658484 0.005609894 2.1424717 10 1.257975 1.236632 -0.0037624711 1.51186713 0.011102100 3.8328853 13 1.260772 1.239614 0.0143989837 -0.22265675 0.023014160 2.3315124 14 1.260845 1.239651 -0.0040617730 -3.31151875 0.010329166 6.2946131 15 1.260797 1.239584 0.0103611851 2.72419427 0.007336233 11.1460552 18 1.262178 1.241087 -0.0068574513 -0.67723954 0.018872426 4.3795728 19 1.262026 1.240871 -0.0154876331 5.08880726 0.023726530 8.2377793 20 1.262097 1.240991 -0.0036815175 -1.25842502 0.002607456 2.4611063 23 1.265079 1.244188 -0.0122370383 3.38864528 0.008706252 2.4109102 24 1.265282 1.244398 0.0050118856 0.71801210 0.014203056 1.3838263 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.652 co2l1 = 0.452 co2l0 = 0.132" [1] "co2l0 = -103.71 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "140 out of 425 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "285 out of 989 1-min values rejected as stack air" [1] "178 out of 882 Line 1 1-min values rejected as stack air" [1] "107 out of 107 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"