[1] "2025-04-29 20:21:56 MDT" [1] "1401" "140125" "d025" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140125a.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 20:22:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.741" [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] "10 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.741" [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] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:22:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:22:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:22:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:22:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1425 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:22:36 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" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 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 = 0.461 co2off = 379.2 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.02 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 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 127 136 0.09435616 0.1006157 0.09818125 3 -5.378930 302.9692 3 4 137 146 0.10131253 0.1075729 0.10513842 3 54.629148 165.0581 4 3 147 156 0.10826843 0.1145313 0.11348799 3 34.126633 246.7511 6 4 427 436 0.30306131 0.3093206 0.30688640 2 54.658313 161.3516 7 2 437 446 0.31001620 0.3162764 0.31384168 2 -5.058633 295.0763 9 2 727 736 0.51175052 0.5180097 0.51557559 2 -5.131781 303.2950 12 3 756 765 0.53262271 0.5388855 0.53784149 2 34.412172 240.8589 14 4 1026 1035 0.72042445 0.7266840 0.72424955 2 54.758102 157.7922 15 2 1036 1045 0.72737960 0.7336389 0.73120443 2 -5.265883 303.5029 17 2 1326 1335 0.92909511 0.9353544 0.93292049 3 -4.792422 298.1431 18 4 1336 1345 0.93604983 0.9423126 0.93987876 3 54.732656 160.4360 19 3 1346 1355 0.94300810 0.9492676 0.94822461 3 34.397242 243.7425 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.224968 1.346991 -0.0056657866 1.9776373 0.014570926 6.0211738 3 1.224881 1.346879 0.0077562002 0.9495211 0.019176080 3.0471632 4 1.224972 1.347081 -0.0003243557 -1.2977121 0.003475912 2.2492281 6 1.225933 1.348006 -0.0020965678 0.4467592 0.007188005 1.5695485 7 1.226031 1.348092 -0.0012084702 3.0550365 0.005282155 10.0034930 9 1.227037 1.349199 0.0141097729 2.9884881 0.035327502 7.5832591 12 1.227479 1.349702 -0.0019309087 -0.1729149 0.006519780 0.9642008 14 1.228846 1.351125 0.0016855004 2.8631152 0.007129928 9.0304212 15 1.228979 1.351288 -0.0019693794 2.8194948 0.006013975 7.8184884 17 1.229825 1.352075 0.0059751618 1.0229955 0.016991521 9.2375664 18 1.229787 1.352006 0.0047567019 -0.3476340 0.016135102 2.1380605 19 1.229867 1.352087 -0.0012089299 1.0814190 0.007189979 2.4891397 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.002 co2l1 = 0.462 co2l0 = 0.021" [1] "co2l0 = -151.36 co2l1 = 0.231" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "124 out of 295 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "171 out of 1244 1-min values rejected as stack air" [1] "171 out of 1244 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"