[1] "2025-04-29 20:53:48 MDT" [1] "1403" "140323" "d082" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140323a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 20:53:52 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.818, ave o2scale2 = 0.746" [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] "276 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.818, ave o2scale2 = 0.746" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "282 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:53:52 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:53:52 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:54:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:54:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 282 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1154 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:54:20 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" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [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 = 0.402 co2off = 380.19 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.02 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 20 29 0.01921247 0.02550712 0.02305239 3 19.44391 274.6744 3 4 30 35 0.02829630 0.03248032 0.03143420 3 88.09177 131.5822 4 3 36 45 0.03317708 0.03943634 0.03839306 3 64.52095 212.7824 6 4 263 272 0.22811227 0.23437153 0.23193717 2 87.63119 117.3797 7 2 273 279 0.23506889 0.24133015 0.23993941 2 19.13920 273.7139 9 2 480 489 0.43683912 0.44309844 0.44066436 3 18.77683 274.8486 10 4 490 495 0.44379809 0.44866785 0.44762452 3 87.48705 134.1801 11 5 496 505 0.45075755 0.45702471 0.45598059 NA 61.32712 191.1497 12 3 506 515 0.45772080 0.46398264 0.46293927 3 63.89703 212.9001 14 4 722 729 0.64555443 0.65181372 0.64937971 2 87.32508 127.7553 15 2 730 737 0.65250943 0.65738157 0.65564230 2 18.31944 270.4526 17 2 978 983 0.85431713 0.85849068 0.85709935 3 18.40184 264.5202 18 4 984 989 0.86127263 0.86475003 0.86370664 3 86.64183 127.4593 19 3 990 999 0.86823032 0.87449320 0.87345017 3 63.23246 212.6353 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.208173 1.325702 -0.0036251895 1.3620805 0.012203492 5.234770 3 1.208465 1.325972 -0.0038221289 -3.4758514 0.010678831 4.583593 4 1.208908 1.326436 0.0025000634 1.5819419 0.012192121 2.614073 6 1.214025 1.332015 0.0010726471 1.0289081 0.007567110 4.945705 7 1.214048 1.332062 0.0002058856 0.8898931 0.007039703 11.698000 9 1.223503 1.342166 0.0027519776 1.8494412 0.007591095 5.786666 10 1.224062 1.342804 -0.0018920115 1.5811744 0.013509871 2.073283 11 1.224372 1.343091 0.0222212975 1.0639710 0.015733126 3.655348 12 1.224662 1.343419 -0.0067935995 4.1074131 0.017756538 5.921869 14 1.231884 1.351435 0.0268353544 0.9788919 0.073866705 3.207647 15 1.232088 1.351659 0.0012944213 0.5836816 0.014456778 6.627111 17 1.228311 1.347820 -0.0032567661 -0.1491371 0.006002061 0.539880 18 1.228279 1.347794 0.0114495943 -1.8286769 0.020289209 3.181139 19 1.227853 1.347343 -0.0061020879 -5.6659856 0.016504259 7.556023 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 369.075 co2l1 = 0.403 co2l0 = -0.398" [1] "co2l0 = -142.09 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "32 out of 115 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "83 out of 995 1-min values rejected as stack air" [1] "83 out of 995 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"