[1] "2025-04-30 02:04:48 MDT" [1] "1612" "161211" "d346" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161211a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 82620 63 [1] 82620 [1] 82620 [1] "testing skipping spike filter" [1] 82620 [1] 82620 [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 02:04:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.03, ave o2scale2 = 0.838" [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] "25 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.03, ave o2scale2 = 0.838" [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] "25 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:04:52 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:04:52 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:05:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:05:09 MDT" [1] "reading in recalculated plot titles" [1] "Removed 25 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1351 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:05:17 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 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.964 co2off = 418.6 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.33 minutes" [1] "Average Cal: 7.8 minutes" [1] "Shortest Cal: 6.22 minutes" [1] "Longest Cal: 8.41 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 63 71 0.04640492 0.05222025 0.05003633 2 -12.77840 116.4902 3 2 72 79 0.05294523 0.05808979 0.05625229 2 -35.09267 225.3823 5 2 349 357 0.25449699 0.26033860 0.25815083 3 -35.19439 224.8536 6 4 358 366 0.26108142 0.26690631 0.26472979 3 -12.87550 117.7169 7 3 367 375 0.26762370 0.27338898 0.27267645 3 -26.21240 214.2317 9 4 633 641 0.46295284 0.46874552 0.46656668 2 -12.88954 112.3939 10 2 642 649 0.46946684 0.47455168 0.47273087 2 -35.21790 228.7103 13 2 915 923 0.67146131 0.67730394 0.67512170 3 -35.23185 223.4063 14 4 924 930 0.67802242 0.68234245 0.68089411 3 -12.90519 108.3207 15 3 931 938 0.68449673 0.68958562 0.68921997 3 -26.26135 221.5071 17 4 1193 1201 0.87956522 0.88535625 0.88316939 2 -12.92153 116.6340 18 2 1202 1210 0.88608154 0.89186629 0.88970429 2 -35.24414 229.4804 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9717092 1.194059 -0.0013181790 -1.0938773 0.003751364 4.498635 3 0.9717341 1.194087 -0.0022124992 -4.0746065 0.004724879 9.896935 5 0.9709416 1.193042 -0.0020478390 0.4876527 0.006205751 1.214527 6 0.9708519 1.193003 0.0008371641 0.6982040 0.003031089 3.477960 7 0.9709033 1.192949 -0.0012157241 -1.1749516 0.004255948 1.222240 9 0.9711041 1.193154 -0.0011260398 -1.2630421 0.003948374 4.436771 10 0.9711307 1.193177 -0.0022020759 -1.4029768 0.005214863 7.671121 13 0.9713467 1.193263 -0.0015514771 1.6743861 0.004519757 6.110782 14 0.9713151 1.193262 0.0044839553 -4.0346426 0.008977837 7.110061 15 0.9709450 1.192837 -0.0027054433 5.6692941 0.005925536 4.221597 17 0.9718429 1.193251 -0.0017662477 -0.5519684 0.004498532 4.585549 18 0.9718346 1.193124 -0.0036492601 0.7723349 0.011082357 5.181497 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.573 co2l1 = 0.963 co2l0 = 0.064" [1] "co2l0 = -141.85 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "37 out of 109 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "72 out of 1189 1-min values rejected as stack air" [1] "72 out of 1189 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"