[1] "2025-04-29 18:52:47 MDT" [1] "1306" "130605" "d156" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130605a.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 18:52:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.72" [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] "18 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.72" [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] "18 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:52:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:52:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:53:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:53:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 18 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:53:25 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.7" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.281 co2off = 373.84 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.6 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 229 238 0.1601802 0.1664398 0.1640054 2 38.61609 155.13441 3 2 239 248 0.1671353 0.1733943 0.1709601 2 -35.49028 243.02848 5 2 526 535 0.3688614 0.3751210 0.3726868 3 -34.88884 243.90064 6 4 536 545 0.3758164 0.3820755 0.3796415 3 38.80741 161.26841 7 3 546 555 0.3827710 0.3890305 0.3879874 3 77.21234 85.37977 9 4 821 829 0.5781989 0.5837624 0.5816759 2 39.02340 157.40559 10 2 830 839 0.5844578 0.5907171 0.5882830 2 -34.29715 247.47968 11 5 840 847 0.5928033 0.5976718 0.5973239 NA 26.18538 137.72621 14 2 1117 1126 0.7861435 0.7924028 0.7899688 3 -34.00355 249.57151 15 4 1127 1136 0.7930984 0.7993576 0.7969234 3 39.31376 155.57035 16 3 1137 1146 0.8000532 0.8063123 0.8052690 3 77.53378 88.31102 18 4 1412 1418 0.9948334 0.9997025 0.9983114 1 39.75767 160.11074 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.299565 1.393981 -0.018339635 0.09570897 0.05237633 1.0848792 3 1.299453 1.393870 -0.024399189 -0.89576996 0.06307952 2.9053634 5 1.300452 1.394814 0.008927461 1.53809863 0.02683469 4.8577057 6 1.300254 1.394652 -0.003548136 2.26426645 0.01522334 8.1691937 7 1.299834 1.394298 0.006551040 0.78605596 0.01692928 1.0873367 9 1.297012 1.391436 0.008660573 -0.62469270 0.02180527 1.9317093 10 1.297068 1.391458 0.013885130 0.02743644 0.04809467 0.7707875 11 1.296469 1.390795 -0.171521305 -0.91641319 0.12144559 0.6492710 14 1.290635 1.384835 0.008688856 -0.07955134 0.02565424 1.4954761 15 1.290427 1.384599 0.009819812 0.92437275 0.02843465 2.8841652 16 1.289912 1.384079 0.002958582 -1.98187386 0.01199028 2.5789167 18 1.280918 1.374619 -0.013177315 -1.42780901 0.02509383 2.3419229 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.992 co2l1 = 0.279 co2l0 = 0.179" [1] "co2l0 = -131.69 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "95 out of 330 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "235 out of 1255 1-min values rejected as stack air" [1] "233 out of 882 Line 1 1-min values rejected as stack air" [1] "2 out of 373 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"