[1] "2025-04-29 21:01:02 MDT" [1] "1404" "140408" "d098" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140408a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 46500 63 [1] 46500 [1] 46500 [1] "testing skipping spike filter" [1] 46500 [1] 46500 [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 21:01:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.797, ave o2scale2 = 0.726" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "43 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.797, ave o2scale2 = 0.726" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "43 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:01:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:01:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:01:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:01:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 43 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 731 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:01:13 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.379 co2off = 359.97 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.58 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 4 4 269 278 0.6772172 0.6834769 0.6810428 1 82.070125 109.4753 1.254894 7 2 568 577 0.8858972 0.8921573 0.8897228 3 9.210297 267.8443 1.254023 8 4 578 587 0.8928528 0.8991123 0.8966779 3 81.972445 123.1511 1.253995 9 3 588 597 0.8998079 0.9060676 0.9050242 3 57.039992 208.3425 1.254216 jfcv2 co2slp o2slp co2sd o2sd 4 1.377706 0.019423775 8.269517 0.04966515 21.05639 7 1.376497 0.009414703 4.836047 0.02485242 12.87794 8 1.376430 0.011082336 3.094105 0.03235242 11.18280 9 1.376635 -0.003998971 -2.090560 0.01275759 12.06731 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.103 co2l1 = 0.38 co2l0 = -0.183" [1] "co2l0 = -140.99 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "5 out of 5 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 636 1-min values rejected as stack air" [1] "0 out of 636 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"