[1] "2025-04-29 19:40:01 MDT" [1] "1311" "131028" "d301" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131028a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 50340 63 [1] 50340 [1] 50340 [1] "testing skipping spike filter" [1] 50340 [1] 50340 [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 19:40:03 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.717" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "74 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.717" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "75 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:40:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:40:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:40:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:40:09 MDT" [1] "reading in recalculated plot titles" [1] "Removed 75 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 2 row(s) with low FLSP" [1] "TEMP: 761 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:40:11 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 = -446.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.4" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.3" [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 = 0.395 co2off = 382.46 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 235 244 0.6325695 0.6388288 0.6363948 2 31.60218 189.6827 1.270980 3 2 245 254 0.6395243 0.6457836 0.6433495 2 -20.72661 304.1174 1.270893 5 2 534 543 0.8412537 0.8475139 0.8450795 3 -20.19918 296.8604 1.270643 6 4 544 553 0.8482094 0.8544688 0.8520343 3 32.49046 208.0610 1.270695 7 3 554 563 0.8551644 0.8614234 0.8603802 3 60.14115 132.3475 1.270617 jfcv2 co2slp o2slp co2sd o2sd 2 1.395164 0.019662923 -0.7689227 0.05277674 10.974921 3 1.395337 0.019804096 4.0362575 0.04987876 14.958177 5 1.396054 -0.006940555 0.3859997 0.02134763 4.477773 6 1.396106 0.013926391 -0.6938020 0.03525432 2.462065 7 1.395999 0.009173261 0.1738145 0.02337096 1.609917 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.348 co2l1 = 0.391 co2l0 = 0.181" [1] "co2l0 = -135.66 co2l1 = 0.198" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "164 out of 340 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "176 out of 694 1-min values rejected as stack air" [1] "176 out of 694 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"