[1] "2025-04-30 03:20:29 MDT" [1] "1707" "170817" "d229" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170817a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 03:20:33 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.87, ave o2scale2 = 1.004" [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] "34 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.87, ave o2scale2 = 1.004" [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] "36 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:20:33 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:20:33 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:20:55 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:20:56 MDT" [1] "reading in recalculated plot titles" [1] "Removed 36 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1368 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:20:59 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.46 co2off = 416.65 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.19 minutes" [1] "Average Cal: 8.05 minutes" [1] "Shortest Cal: 6.15 minutes" [1] "Longest Cal: 8.23 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 76 82 0.05793840 0.06220810 0.06078545 3 -5.083087 341.2989 3 4 83 91 0.06291924 0.06862057 0.06647716 3 -2.329920 159.5691 4 3 92 100 0.06933177 0.07501863 0.07430787 3 -5.867830 309.8943 6 4 363 371 0.26435938 0.27005972 0.26792016 2 -2.258375 181.6160 7 2 372 380 0.27077075 0.27645807 0.27432526 2 -5.012241 324.2130 9 2 655 663 0.47216435 0.47787804 0.47572505 3 -4.986357 334.1751 10 4 664 672 0.47859728 0.48428495 0.48215196 3 -2.240134 169.4019 12 3 682 690 0.49140538 0.49709216 0.49638127 3 -5.777304 313.8177 14 4 947 954 0.68000113 0.68568909 0.68367428 2 -2.191980 169.2421 15 2 955 961 0.68640038 0.69209630 0.68981953 2 -4.924825 329.4270 17 2 1213 1221 0.88783099 0.89352323 0.89138989 2 -4.907071 323.4733 18 4 1222 1230 0.89423435 0.89993409 0.89779406 2 -2.175509 174.4046 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.145918 0.9963192 -1.159506e-04 8.20795703 0.0002781074 22.813599 3 1.145828 0.9961509 1.631668e-03 0.06220354 0.0037546350 3.852448 4 1.146005 0.9960464 3.532602e-04 -3.68370379 0.0009469759 4.602679 6 1.147274 0.9951497 6.779291e-05 -0.13844888 0.0010631126 7.398753 7 1.147389 0.9952442 -7.543991e-04 0.68745412 0.0018524437 7.673218 9 1.149603 0.9951034 9.301020e-05 2.08218328 0.0012503720 5.907151 10 1.149387 0.9948864 5.908545e-04 -2.15060694 0.0016907486 5.572196 12 1.149727 0.9951111 4.251927e-04 2.35448783 0.0009937491 2.605354 14 1.151082 0.9950645 -8.233307e-05 0.66003222 0.0016389836 9.678442 15 1.151263 0.9952692 4.459892e-05 0.37371792 0.0010564164 2.734648 17 1.154843 0.9970705 -7.999243e-04 3.00853470 0.0023095219 8.635836 18 1.154754 0.9970228 -3.489382e-04 0.62076884 0.0019985114 4.842247 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.985 co2l1 = 4.442 co2l0 = -0.222" [1] "co2l0 = -164.61 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "44 out of 290 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "246 out of 1207 1-min values rejected as stack air" [1] "246 out of 1207 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"