[1] "2025-04-30 01:05:05 MDT" [1] "1601" "160119" "d019" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160119a.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] "2025-04-30 01:05:09 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.783" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "11 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.783" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:05:10 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:05:10 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:05:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:05:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 18 row(s) with low FLSP" [1] "Removed 339 row(s) with high TFRIDGE" [1] "TEMP: 1068 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:05:26 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.948 co2off = 411.08 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.65 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 52 61 0.03764962 0.04390868 0.04147470 2 2.000586 380.1045 3 2 62 71 0.04460422 0.05086343 0.04842941 2 -20.703766 491.5254 5 2 318 327 0.24633209 0.25259491 0.25015803 3 -20.717000 495.4237 6 4 328 337 0.25329057 0.25954994 0.25711561 3 1.982008 378.5480 7 5 338 347 0.26024537 0.26650845 0.26546416 NA -11.037812 456.3060 8 3 348 357 0.26720388 0.27346675 0.27242385 3 -11.597289 487.8535 10 4 618 627 0.45500810 0.46126768 0.45883315 2 1.936977 380.7745 11 2 628 637 0.46196302 0.46822624 0.46579007 2 -20.764359 493.3835 13 2 768 774 0.66373918 0.66791204 0.66652100 1 -20.875550 489.1515 15 4 909 918 0.87241027 0.87867014 0.87623581 2 1.814555 384.0309 16 2 919 927 0.87936560 0.88492946 0.88284282 2 -20.908554 496.2002 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.135494 1.282323 -1.804889e-04 2.4314925 0.002568251 9.796472 3 1.135481 1.282346 -4.253073e-03 -0.6757382 0.011240658 6.048300 5 1.134604 1.281537 1.309062e-03 1.2386458 0.004076555 3.841335 6 1.134391 1.281294 6.424760e-04 0.8566978 0.004548773 2.459831 7 1.134132 1.281020 -2.621832e-03 -0.4681393 0.001856155 2.316754 8 1.134103 1.281002 7.084009e-04 1.9837748 0.003410681 3.544611 10 1.132404 1.279166 9.154476e-05 0.3872011 0.004178754 2.665171 11 1.132266 1.279024 -2.498243e-03 -0.3496957 0.006440208 3.902428 13 1.127585 1.273691 5.003993e-05 -0.3733225 0.002224421 2.822736 15 1.125786 1.271397 -3.305316e-04 0.7761502 0.004009536 7.414663 16 1.125580 1.271190 -6.461673e-04 2.6305458 0.005338347 7.087889 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.369 co2l1 = 0.947 co2l0 = -0.001" [1] "co2l0 = -201.34 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "44 out of 130 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "86 out of 930 1-min values rejected as stack air" [1] "86 out of 930 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"