[1] "2025-04-29 20:26:37 MDT" [1] "1401" "140201" "d032" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140201a.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 20:26:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.732" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.732" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:26:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:26:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:27:00 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:27:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:27:17 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 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.8" [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 = 0.456 co2off = 374.08 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.87 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.03 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 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 125 134 0.08812593 0.09438889 0.09195328 2 55.614781 165.5844 3 2 135 143 0.09508449 0.10134728 0.09916155 2 -4.738965 304.7414 4 5 144 151 0.10204285 0.10691111 0.10656341 NA 30.623750 220.9794 6 2 422 431 0.29687138 0.30313426 0.30070007 3 -4.922523 300.9266 7 4 432 441 0.30382983 0.31008927 0.30765502 3 55.599430 163.2004 8 3 442 451 0.31078478 0.31704404 0.31600075 3 34.814688 245.4012 10 4 722 731 0.50556513 0.51182486 0.50939059 2 55.707219 159.8144 11 2 732 741 0.51252028 0.51878336 0.51634891 2 -4.820305 305.8200 13 2 1022 1031 0.71425995 0.72052306 0.71808728 3 -4.786844 304.2658 14 4 1032 1041 0.72121834 0.72747786 0.72504344 3 55.742219 157.9724 15 5 1042 1051 0.72817312 0.73443287 0.73338933 NA 30.867875 228.5779 16 3 1052 1061 0.73512847 0.74138736 0.74034423 3 35.124484 241.4430 18 4 1322 1331 0.92294569 0.92921753 0.92678005 2 55.835891 159.3438 19 2 1332 1341 0.92991282 0.93617564 0.93374122 2 -5.021078 297.3340 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.243041 1.366190 0.001587110 -1.1905959 0.004173417 4.9565386 3 1.242839 1.366061 -0.011372908 3.0203368 0.027592619 8.7921937 4 1.242873 1.366029 -0.152905453 -0.8739557 0.324915566 0.6188297 6 1.242981 1.366224 -0.011025413 1.9704717 0.027611966 5.6625921 7 1.242839 1.366084 0.008678547 2.0463189 0.024480665 5.5653107 8 1.242844 1.366054 -0.011975670 0.2072180 0.030177969 2.0446827 10 1.242574 1.365784 -0.001464917 3.3087873 0.008608097 8.9425823 11 1.242641 1.365853 -0.003921651 3.2951472 0.011510643 8.7479777 13 1.242162 1.365329 0.012673114 2.1460769 0.031736516 7.4963223 14 1.242178 1.365417 0.004601193 -0.8021125 0.017630825 3.2576287 15 1.242228 1.365493 -0.036180654 -4.7983061 0.025632621 7.6498851 16 1.242245 1.365476 0.003561651 -7.7073324 0.010339426 10.6441887 18 1.242588 1.365948 0.002194460 3.0421334 0.008285957 8.8239973 19 1.242788 1.366147 -0.001383141 5.3556343 0.006869702 13.6070586 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.85 co2l1 = 0.456 co2l0 = 0.019" [1] "co2l0 = -150.02 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "57 out of 273 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "216 out of 1243 1-min values rejected as stack air" [1] "216 out of 1243 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"