[1] "2025-04-29 23:16:22 MDT" [1] "1502" "150301" "d060" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150301a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 63189 63 [1] 63189 [1] 63189 [1] "testing skipping spike filter" [1] 63189 [1] 63189 [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 23:16:25 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.763" [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] "33 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.763" [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] "33 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:16:25 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:16:25 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:16:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:16:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 33 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1020 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:16:46 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.8" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.95 co2off = 414.09 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.85 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 91 100 0.06382723 0.07008837 0.06765285 2 -1.201586 125.7529 3 2 101 110 0.07078594 0.07704861 0.07461178 2 -30.321656 264.6579 4 5 111 120 0.07774421 0.08400726 0.08296429 NA -12.023625 175.2648 6 2 379 388 0.27256178 0.27882471 0.27639065 3 -30.277008 273.4175 7 4 389 398 0.27952376 0.28578686 0.28334927 3 -1.179594 113.2961 8 3 399 408 0.28648215 0.29274502 0.29170096 3 -12.708750 211.4373 10 4 678 685 0.48275000 0.48761817 0.48587974 2 -1.185458 117.8159 11 2 686 695 0.48831762 0.49458061 0.49214333 2 -30.302625 267.7462 13 2 969 978 0.69013932 0.69639852 0.69396448 3 -30.308328 267.5324 14 4 979 986 0.69709392 0.70335414 0.70161530 3 -1.205865 124.8725 15 5 987 996 0.70405104 0.71031641 0.70927010 NA -12.055062 179.7026 16 3 997 1002 0.71101186 0.71727532 0.71762299 3 -12.740359 209.5897 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.172862 1.303780 0.0025189574 -0.8346990408 0.006449403 4.4732100 3 1.173033 1.303900 -0.0036766272 -0.2228875245 0.009462449 5.4895670 4 1.173000 1.303869 -0.0024968789 -8.7561727337 0.001767767 11.7682395 6 1.177980 1.311008 -0.0006589970 0.2410041320 0.001859291 3.3026030 7 1.178061 1.311100 0.0017756363 0.6104904871 0.006121081 4.9022339 8 1.178204 1.311260 0.0057279790 4.3971797560 0.014590810 6.2553916 10 1.179758 1.313108 -0.0010343427 -0.0006604925 0.002718475 0.9348259 11 1.179900 1.313255 -0.0018645265 -1.1423871764 0.007542365 4.8989347 13 1.179594 1.312883 -0.0010400508 0.6846911392 0.003210743 2.8790133 14 1.179016 1.312266 0.0007648712 8.6735885964 0.001860534 21.5184779 15 1.179023 1.312255 -0.0021096174 8.8366232016 0.001502602 11.5839211 16 1.179274 1.312527 0.0023401966 -9.7124867028 0.007413806 6.8766361 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 405.373 co2l1 = 0.948 co2l0 = -0.002" [1] "co2l0 = -139.73 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "6 out of 136 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "130 out of 861 1-min values rejected as stack air" [1] "130 out of 861 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"