[1] "2025-04-29 23:51:01 MDT" [1] "1504" "150504" "d124" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150504a.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 23:51:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.856, ave o2scale2 = 0.771" [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] "6 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.856, ave o2scale2 = 0.771" [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] "6 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:51:06 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:51:06 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:51:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:51:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1430 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:51:34 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -478.2" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 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 = 0.956 co2off = 411.29 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 4 2 246 255 0.1738946 0.1801841 0.1777496 3 -36.358805 385.7954 5 4 256 265 0.1808797 0.1871394 0.1847053 3 -7.457813 232.9280 6 3 266 275 0.1878349 0.1940942 0.1930511 3 -18.898992 334.8697 8 4 546 555 0.3826123 0.3888715 0.3864373 2 -7.423688 238.6707 9 2 556 565 0.3895671 0.3958302 0.3933946 2 -36.338344 381.5774 10 5 566 575 0.3965257 0.4027857 0.4017423 NA -18.232250 292.8027 12 2 846 855 0.5912856 0.5975452 0.5951107 3 -36.248875 385.4969 13 4 856 865 0.5982407 0.6045001 0.6020657 3 -7.361164 239.8169 14 3 866 875 0.6051957 0.6114549 0.6104116 3 -18.800391 331.8045 16 4 1146 1155 0.7999648 0.8062279 0.8037921 2 -7.314953 238.5472 17 2 1156 1165 0.8069232 0.8131828 0.8107483 2 -36.209555 386.2606 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.161914 1.290415 -0.0015888318 1.50118832 0.0057670010 6.279873 5 1.162029 1.290549 0.0016388554 -0.37193250 0.0046393359 5.342524 6 1.162217 1.290734 0.0039829039 4.16809874 0.0104554453 5.496843 8 1.165514 1.294355 -0.0002897736 -0.47039963 0.0013375584 2.241245 9 1.165602 1.294456 -0.0024817238 0.05715149 0.0066083011 4.738968 10 1.165653 1.294469 0.0012482317 5.02612018 0.0008838835 7.398254 12 1.169741 1.299004 -0.0026907058 0.15275451 0.0076054345 1.607533 13 1.169734 1.298980 0.0001299462 -0.66182349 0.0048191556 2.254225 14 1.170152 1.299455 0.0023924658 1.01459275 0.0063990923 2.959911 16 1.174396 1.304278 0.0014894285 0.05408833 0.0060129835 2.110251 17 1.174675 1.304628 -0.0007524299 1.41153197 0.0071961080 3.660176 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 411.303 co2l1 = 0.955 co2l0 = 0.013" [1] "co2l0 = -165.17 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "110 out of 350 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "240 out of 1269 1-min values rejected as stack air" [1] "238 out of 1151 Line 1 1-min values rejected as stack air" [1] "2 out of 118 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"