[1] "2025-04-29 21:33:41 MDT" [1] "1406" "140715" "d196" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140715a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 21:33:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.739" [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] "9 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.821, ave o2scale2 = 0.739" [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 > 1000 )" [1] "2025-04-29 21:33:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:33:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:34:02 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:34:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1421 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:34:08 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.474 co2off = 381.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.93 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 271 280 0.1900937 0.1963600 0.1939226 3 -19.41370 277.1609 1.200258 3 4 281 290 0.1970557 0.2033184 0.2008820 3 39.04802 132.0799 1.200415 4 5 291 300 0.2040139 0.2102734 0.2092299 NA 16.97456 193.3168 1.201174 5 3 301 310 0.2109688 0.2172316 0.2161866 3 19.25056 215.4083 1.201838 7 4 567 576 0.3991194 0.4053821 0.4029479 2 39.38597 141.0263 1.214245 8 2 577 586 0.4060776 0.4123376 0.4099033 2 -19.08047 279.2982 1.214588 10 2 862 870 0.6086596 0.6142235 0.6121367 3 -18.69510 284.0658 1.228720 11 4 871 880 0.6149190 0.6211785 0.6187444 3 39.77334 136.5734 1.228170 12 3 881 890 0.6218740 0.6281343 0.6270909 3 19.95089 218.5761 1.228090 14 4 1158 1167 0.8167266 0.8229861 0.8205516 2 39.85354 136.5311 1.235421 15 2 1168 1177 0.8236817 0.8299448 0.8275087 2 -18.59430 271.0999 1.235839 16 5 1178 1187 0.8306402 0.8369039 0.8358605 NA 17.46022 199.2217 1.235798 jfcv2 co2slp o2slp co2sd o2sd 2 1.333328 -0.0028721048 -0.9889668 0.011051899 3.582495 3 1.333510 0.0015082939 0.2025991 0.012628171 1.888963 4 1.334348 0.0233302836 2.6615174 0.016528621 5.783702 5 1.335050 0.0007955875 -2.8854958 0.007174872 3.740343 7 1.349005 0.0018879144 0.5667564 0.005815044 4.882523 8 1.349393 -0.0020340047 0.9499884 0.008443417 2.786308 10 1.364845 0.0002673339 -0.3883218 0.004305680 8.055445 11 1.364139 0.0079388966 -0.3823623 0.027077455 3.972106 12 1.364059 0.0001959315 -0.7094689 0.008178993 1.143028 14 1.371957 0.0062065572 1.7303285 0.015318273 6.136248 15 1.372431 -0.0051845942 2.4533329 0.013704460 15.777107 16 1.372423 -0.0036813644 -3.8491652 0.002607456 5.532517 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.583 co2l1 = 0.472 co2l0 = 0.084" [1] "co2l0 = -144.57 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "226 out of 680 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "454 out of 1255 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "454 out of 1255 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"