[1] "2025-04-29 20:35:09 MDT" [1] "1402" "140215" "d046" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140215a.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 20:35:13 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.723" [1] "Removing 1 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] "118 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.723" [1] "Removing 1 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] "118 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:35:14 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:35:14 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:35:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:35:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 118 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 643 row(s) with low FLWTA" [1] "TEMP: 674 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:35:39 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.392 co2off = 378.56 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.77 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 49 58 0.5628333 0.5690943 0.5666594 2 66.280328 158.2053 1.264265 3 2 59 68 0.5697896 0.5760515 0.5736155 2 -4.925055 306.5175 1.264041 6 2 347 356 0.7716053 0.7778651 0.7754311 3 -4.723031 308.4500 1.259371 7 4 357 366 0.7785616 0.7848229 0.7823882 3 65.797047 162.2051 1.259002 8 3 367 376 0.7855186 0.7917806 0.7907373 3 41.597359 247.1272 1.258679 10 4 647 656 0.9803703 0.9866365 0.9842003 2 65.455383 162.6059 1.254086 11 2 657 666 0.9873320 0.9935920 0.9911572 2 -4.342344 301.5774 1.254054 jfcv2 co2slp o2slp co2sd o2sd 2 1.386582 -0.002374774 4.6939453 0.009263790 11.794277 3 1.386320 -0.003080518 0.9144574 0.013929287 4.365971 6 1.381303 -0.002213939 -2.0719440 0.006377013 10.423579 7 1.380976 0.004325885 -0.2242546 0.013797796 4.141870 8 1.380708 -0.006483140 -1.5033766 0.018067574 2.085846 10 1.375802 -0.002285635 2.3454228 0.007313411 8.046629 11 1.375840 -0.006395491 4.1717285 0.016903283 10.869512 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.46 co2l1 = 0.392 co2l0 = 0.01" [1] "co2l0 = -149.22 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "22 out of 190 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "168 out of 577 1-min values rejected as stack air" [1] "166 out of 198 Line 1 1-min values rejected as stack air" [1] "2 out of 379 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"