[1] "2025-04-29 19:05:02 MDT" [1] "1306" "130623" "d174" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130623a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 19:05:06 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.8, ave o2scale2 = 0.741" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 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 = 0.8, 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] "10 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:05:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:05:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:05:24 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:05:26 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 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 19:05:36 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.317 co2off = 375.07 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.2 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 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 82 91 0.05752642 0.06378932 0.06135390 2 49.37205 151.56592 3 2 92 101 0.06448469 0.07074763 0.06831142 2 -16.20189 242.17672 6 2 382 388 0.26626458 0.27265006 0.27081535 3 -18.32263 245.39803 7 4 389 398 0.27334534 0.27960874 0.27717256 3 48.29199 157.45957 8 3 399 408 0.28030417 0.28656713 0.28552383 3 83.34823 82.55689 10 4 679 688 0.47511976 0.48138290 0.47894702 2 49.46948 155.55247 11 2 689 698 0.48207821 0.48834094 0.48590591 2 -15.90484 246.47514 12 5 699 708 0.48903628 0.49529913 0.49425603 NA 39.36509 139.24543 14 2 978 987 0.68387112 0.69013420 0.68769827 3 -14.76708 243.27084 15 4 988 997 0.69082957 0.69709216 0.69465729 3 49.86980 153.94327 16 3 998 1007 0.69778750 0.70405043 0.70300734 3 83.57166 87.60602 19 4 1276 1285 0.89260735 0.89886644 0.89643226 2 49.75541 157.41683 20 2 1286 1295 0.89956574 0.90582457 0.90339049 2 -15.23761 243.47272 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.253924 1.354695 -0.0009317027 0.1241488 0.008469841 7.1658151 3 1.254107 1.354868 -0.0290077633 -1.4782409 0.071727432 6.0851465 6 1.258824 1.359494 -0.0507421941 -0.4269065 0.144566185 2.0343285 7 1.258619 1.359337 0.0060540183 0.8965030 0.018562197 3.4095057 8 1.258762 1.359512 0.0105262294 2.0298001 0.035966157 2.8385053 10 1.252959 1.353403 -0.0087720401 0.9731581 0.022188240 3.7622499 11 1.252511 1.352929 -0.0184985427 -0.6451818 0.046099393 3.6848262 12 1.251437 1.351788 -0.0885583524 1.5083508 0.062711533 2.4278888 14 1.240031 1.339305 0.0135136913 -0.5086387 0.033341137 3.0912965 15 1.239682 1.338942 -0.0098354614 1.6492513 0.026092486 4.3193331 16 1.239006 1.338194 -0.0025410183 -0.1057163 0.010419601 0.9230777 19 1.243897 1.343639 0.0070702921 -1.1223775 0.017501242 4.9647234 20 1.244234 1.343988 0.0036921715 2.0403515 0.013357664 7.3573670 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.387 co2l1 = 0.314 co2l0 = 0.11" [1] "co2l0 = -131.36 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "56 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "144 out of 1242 1-min values rejected as stack air" [1] "132 out of 1072 Line 1 1-min values rejected as stack air" [1] "12 out of 170 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"