[1] "2025-04-29 21:53:28 MDT" [1] "1406" "140820" "d232" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140820a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85560 63 [1] 85560 [1] 85560 [1] "testing skipping spike filter" [1] 85560 [1] 85560 [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 21:53:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.73" [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] "6 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.73" [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] "6 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:53:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:53:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:53:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:53:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:53:55 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 = -476.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.6" [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 = 0.473 co2off = 385.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.14 minutes" [1] "Average Cal: 9.09 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.18 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 75 84 0.05287546 0.05913542 0.05670122 2 38.69959 137.2320 3 2 85 94 0.05983096 0.06609028 0.06365628 2 -19.75766 284.4242 5 2 375 384 0.26155446 0.26782867 0.26538541 2 -19.76501 294.5526 6 4 385 394 0.26852758 0.27478822 0.27235413 2 38.66945 148.4478 10 4 669 678 0.47051123 0.47685891 0.47438937 2 38.66263 136.4239 11 2 679 688 0.47756487 0.48391091 0.48144330 2 -19.78395 283.5894 13 2 965 974 0.67931481 0.68566389 0.68319457 3 -19.73681 277.4790 14 4 975 984 0.68636927 0.69271644 0.69024771 3 38.72275 141.7285 15 3 985 994 0.69342179 0.69979861 0.69874111 3 18.92658 216.4157 17 4 1261 1270 0.88811690 0.89446467 0.89199620 2 38.82220 144.5058 18 2 1271 1280 0.89517014 0.90151733 0.89904801 2 -19.61598 282.7998 19 5 1281 1290 0.90222321 0.90856713 0.90750989 NA 17.17028 203.1066 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.232764 1.368830 -0.002027579 1.1557500 0.008516393 6.697222 3 1.232781 1.368767 -0.006458224 1.0918486 0.018474222 5.111805 5 1.233732 1.369595 -0.004197671 -0.1693033 0.012754614 10.916957 6 1.233866 1.369381 0.001135536 -6.2006423 0.013465554 17.463233 10 1.233562 1.368086 -0.002135538 -0.5770897 0.007260307 7.142542 11 1.233545 1.368103 -0.003964095 -1.7867315 0.013393822 14.776973 13 1.233416 1.368988 -0.001077694 -2.5065151 0.004052667 7.664934 14 1.233890 1.369484 -0.000450336 1.2285317 0.010709433 10.380567 15 1.234103 1.369752 -0.002008899 -5.4318803 0.007052240 7.560023 17 1.237553 1.374419 0.004491053 2.5494617 0.012428490 12.823919 18 1.237911 1.374687 -0.001459928 2.0701965 0.009709045 5.511566 19 1.237389 1.374186 0.010037770 2.7589831 0.007203650 8.418637 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.949 co2l1 = 0.472 co2l0 = 0.077" [1] "co2l0 = -145.31 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "157 out of 245 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "88 out of 1231 1-min values rejected as stack air" [1] "88 out of 1231 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"