[1] "2025-04-29 19:30:22 MDT" [1] "1310" "131008" "d281" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131008a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85920 63 [1] 85920 [1] 85920 [1] "testing skipping spike filter" [1] 85920 [1] 85920 [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 19:30:26 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.727" [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] "9 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.727" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:30:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:30:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:30:46 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:30:48 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1422 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:30:55 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 = -446.8" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.5" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.427 co2off = 379 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.06 minutes" [1] "Average Cal: 8.85 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.12 minutes" [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 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 7 0.0006666667 0.004839468 0.003448709 3 -19.14046 292.5895 2 4 8 17 0.0055348380 0.011794907 0.009360200 3 29.54084 207.3726 3 5 18 27 0.0124903067 0.018749421 0.017706344 NA 25.83806 184.1888 4 3 28 37 0.0194451968 0.025704832 0.024661451 3 54.98970 136.5908 8 4 298 307 0.2072611111 0.213520833 0.211086751 2 29.60931 206.8541 9 2 308 317 0.2142164352 0.220475781 0.218041840 2 -19.02958 297.8519 12 2 596 605 0.4162495660 0.422548872 0.420098065 3 -18.78009 297.8063 13 4 606 615 0.4232497396 0.429556800 0.427101830 3 29.59420 209.1230 14 3 616 625 0.4302567998 0.436547454 0.435499530 3 54.93725 136.5413 16 4 894 903 0.6247469618 0.631041898 0.628594314 2 29.65041 207.7247 17 2 904 913 0.6317418981 0.638034983 0.635587833 2 -18.64859 296.2958 18 5 914 923 0.6387346354 0.645028617 0.643979340 NA 22.48759 187.8558 22 2 1188 1197 0.8332550926 0.839589641 0.837140571 3 -18.06141 288.9957 23 4 1198 1207 0.8402892940 0.846589815 0.844139337 3 29.71745 207.9903 24 3 1208 1217 0.8472894097 0.853582726 0.852533753 3 54.81506 126.3200 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.256687 1.383213 0.0008362908 2.56113930 0.002549740 5.5786639 2 1.256690 1.383179 0.0011759468 0.17367312 0.009885953 4.6986761 3 1.256630 1.383122 0.0088635512 0.21847314 0.006275573 1.3160058 4 1.256560 1.383022 -0.0027343689 2.59397842 0.009080827 3.6276925 8 1.253984 1.380326 -0.0087835778 1.04764503 0.023034136 2.9683742 9 1.253968 1.380315 -0.0013106857 0.04397952 0.006507958 2.5662483 12 1.250680 1.376571 -0.0104982945 0.02393835 0.026684665 0.7325026 13 1.250752 1.376636 0.0035477869 -0.63362143 0.016244932 1.8791438 14 1.250397 1.376272 0.0028855362 3.26638815 0.008056649 4.4444389 16 1.248060 1.373830 -0.0084500504 0.97057289 0.023922796 2.9717941 17 1.248124 1.373894 -0.0134042635 0.30050439 0.035951867 2.5036469 18 1.247895 1.373639 -0.0701409848 0.73160713 0.049983611 0.9721448 22 1.242809 1.368281 -0.0088227474 -1.36860390 0.023459690 6.0767308 23 1.242781 1.368117 -0.0000196001 -2.79610779 0.010115043 7.2486983 24 1.242762 1.368163 0.0060573492 -3.30195503 0.015378121 11.8639933 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.296 co2l1 = 0.424 co2l0 = 0.176" [1] "co2l0 = -142.67 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "110 out of 435 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "325 out of 1210 1-min values rejected as stack air" [1] "307 out of 881 Line 1 1-min values rejected as stack air" [1] "18 out of 329 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"