[1] "2025-04-29 22:05:36 MDT" [1] "1408" "140922" "d265" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140922a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 22:05:40 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.739" [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] "338 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.739" [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] "338 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:05:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:05:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:06:00 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:06:01 MDT" [1] "reading in recalculated plot titles" [1] "Removed 338 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1098 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:06:08 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.477 co2off = 384.72 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.01 minutes" [1] "Average Cal: 6.51 minutes" [1] "Shortest Cal: 1 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 3 [2,] 4 5 [3,] 7 9 [4,] 10 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 4 2 172 176 0.1618519 0.1646374 0.1639420 3 -26.284646 291.3019 5 4 177 183 0.1702012 0.1750705 0.1734012 3 31.588980 141.0661 6 3 184 191 0.1757659 0.1820289 0.1816811 3 11.928887 261.7276 8 4 364 369 0.3706077 0.3768681 0.3758249 2 31.262094 144.4734 9 2 370 376 0.3775637 0.3817363 0.3803455 2 -26.664788 277.8577 10 5 377 386 0.3845243 0.3907893 0.3897465 NA 9.138344 193.6521 13 2 619 626 0.5799948 0.5848669 0.5831282 3 -26.995823 280.2888 14 4 627 635 0.5862575 0.5925220 0.5904316 3 30.891922 144.1881 15 3 636 641 0.5932175 0.5973901 0.6005215 3 11.251831 192.4433 17 4 826 831 0.7893866 0.7942547 0.7925161 1 30.471703 138.8559 21 2 1094 1098 0.9967257 0.9995080 0.9988125 1 -27.555667 280.7026 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.230786 1.364733 -0.011078097 1.162642e+01 0.011126112 11.732870 5 1.230765 1.364840 0.006149245 2.717806e-01 0.013217306 1.174533 6 1.230831 1.364826 -0.005413999 4.557925e-14 0.014447815 0.000000 8 1.224652 1.358074 -0.008675166 2.477049e+00 0.011259313 3.377985 9 1.224475 1.357808 -0.012232705 -1.553308e+00 0.021177062 6.956861 10 1.224081 1.357443 -0.009692750 6.584005e+00 0.006850097 8.718031 13 1.219362 1.352412 -0.002662203 1.566011e+00 0.005566841 3.385057 14 1.218636 1.351617 0.006265498 -1.163024e+00 0.014008083 6.500509 15 1.218187 1.351110 -0.010547362 -9.215870e-01 0.014866803 5.876972 17 1.210966 1.343069 -0.008336068 1.528534e-01 0.019988498 2.082502 21 1.207005 1.338583 -0.008892260 -1.220063e+00 0.009098062 1.438065 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 389.508 co2l1 = 0.477 co2l0 = 0.097" [1] "co2l0 = -144.69 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "86 out of 405 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "319 out of 964 1-min values rejected as stack air" [1] "275 out of 508 Line 1 1-min values rejected as stack air" [1] "44 out of 456 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"