[1] "2025-04-29 20:11:03 MDT" [1] "1401" "140106" "d006" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140106a.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 20:11:07 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.735" [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] "8 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.735" [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] "8 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:11:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:11:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:11:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:11:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 8 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1427 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:11:28 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 = -475.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [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 = 0.449 co2off = 377.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 7 16 0.005767477 0.01203131 0.009596654 3 -2.218398 305.8210 3 4 17 26 0.012726910 0.01899161 0.016555928 3 59.507930 157.1450 4 3 27 36 0.019687558 0.02594919 0.024905707 3 38.395086 243.9509 6 4 303 312 0.214481684 0.22074178 0.218307339 2 59.371109 152.6523 7 2 313 322 0.221437124 0.22769676 0.225262352 2 -2.377148 301.0923 9 2 599 608 0.423207234 0.42946664 0.427032523 3 -2.730039 308.7430 10 4 609 618 0.430162066 0.43642422 0.433987710 3 59.154211 171.3672 11 5 619 628 0.437121036 0.44338021 0.442337124 NA 32.877781 242.4880 12 3 629 638 0.444075926 0.45033550 0.449292209 3 38.029164 246.6932 14 4 899 908 0.631893316 0.63815625 0.635718963 2 58.998148 159.1974 15 2 909 918 0.638851823 0.64511082 0.642676646 2 -2.618484 294.6238 19 2 1199 1208 0.840586400 0.84684722 0.844413213 3 -2.283250 298.3826 20 4 1209 1218 0.847544907 0.85380556 0.851371611 3 58.761070 154.1288 21 3 1219 1228 0.854501157 0.86076392 0.859720783 3 37.920367 237.6194 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.241335 1.364999 0.0057459229 0.4639646 0.014582659 8.7504486 3 1.241379 1.365041 0.0025978103 0.3846670 0.019038830 3.8021610 4 1.241482 1.365136 -0.0018561210 -0.2884802 0.008727838 0.8097628 6 1.239019 1.359954 0.0015303783 0.6597513 0.012571703 6.4215054 7 1.239101 1.360134 0.0057072741 1.5886051 0.014884111 5.4847179 9 1.239765 1.361130 -0.0026678570 4.0888496 0.007003980 12.6589659 10 1.239843 1.361177 0.0106882607 2.9022183 0.027531940 10.6891013 11 1.240068 1.361246 -0.0437559819 4.6865559 0.030980116 6.8983704 12 1.239998 1.361195 -0.0005134551 -6.7647309 0.007317950 8.8304751 14 1.238405 1.359392 0.0027043456 3.6816021 0.010657824 9.3936003 15 1.238379 1.359381 -0.0071945017 4.1656884 0.018161163 11.5915861 19 1.238479 1.359479 -0.0069576791 2.1647085 0.017150789 6.0309859 20 1.238518 1.359526 0.0113347396 -0.5688528 0.028750319 2.7814950 21 1.238672 1.359702 0.0003752298 0.4269522 0.008632530 3.9455833 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.737 co2l1 = 0.448 co2l0 = -0.011" [1] "co2l0 = -149.26 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "134 out of 480 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "346 out of 1241 1-min values rejected as stack air" [1] "253 out of 1123 Line 1 1-min values rejected as stack air" [1] "93 out of 118 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"