[1] "2025-04-29 20:45:04 MDT" [1] "1402" "140305" "d064" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140305a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:45:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.75" [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] "68 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.75" [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] "68 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:45:08 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:45:08 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:45:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:45:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 68 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1368 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:45:35 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 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.442 co2off = 367.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.32 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.02 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 jfcv1 2 4 163 172 0.1141542 0.1204142 0.1179796 2 57.845500 159.5115 1.220437 3 2 173 182 0.1211095 0.1273690 0.1249346 2 -5.187789 305.6096 1.220346 5 2 459 468 0.3228604 0.3291230 0.3266889 3 -4.822719 305.9141 1.216613 6 4 469 478 0.3298184 0.3360782 0.3336440 3 57.712656 160.1632 1.216236 7 3 479 488 0.3367736 0.3430367 0.3419935 3 36.274516 241.5780 1.215768 9 4 740 747 0.5315544 0.5364225 0.5346838 2 57.712281 161.1566 1.210746 10 2 748 751 0.5385095 0.5405961 0.5402483 2 -4.601688 294.2813 1.210392 13 2 997 1005 0.7402446 0.7458089 0.7437224 3 -4.558634 304.6642 1.211310 14 4 1006 1015 0.7472037 0.7534626 0.7510284 3 57.616383 162.1836 1.211579 15 3 1016 1025 0.7541582 0.7604176 0.7593744 3 36.256766 239.8596 1.211875 17 4 1296 1305 0.9489526 0.9552118 0.9527776 2 57.636203 164.3002 1.211563 18 2 1306 1315 0.9559072 0.9621667 0.9597327 2 -4.601547 304.0166 1.211845 jfcv2 co2slp o2slp co2sd o2sd 2 1.340236 9.701853e-04 -0.2891001 0.007749712 3.005115 3 1.340141 -8.845351e-03 2.8727436 0.023107376 8.476146 5 1.336185 5.722226e-03 2.9049678 0.014174652 7.539213 6 1.335770 1.267414e-03 1.5232326 0.010886129 3.950534 7 1.335242 -1.556901e-03 -2.1965609 0.014328253 3.113410 9 1.329559 -3.759110e-05 3.0140760 0.005812534 6.212757 10 1.329170 -1.984358e-02 3.9760251 0.014053747 2.815926 13 1.330328 -7.114297e-03 2.1079758 0.016195117 6.079588 14 1.330795 6.795528e-03 -0.2173513 0.022939177 8.483008 15 1.331045 -2.994127e-03 0.7937986 0.008761265 1.221503 17 1.330680 -8.025982e-05 2.0310864 0.002766539 5.833498 18 1.331021 -7.152914e-03 2.4847773 0.017826350 6.669825 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.74 co2l1 = 0.442 co2l0 = 0.017" [1] "co2l0 = -150.08 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 70 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "19 out of 1200 1-min values rejected as stack air" [1] "19 out of 1200 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"