[1] "2025-04-29 22:17:17 MDT" [1] "1410" "141028" "d301" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141028a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 57240 63 [1] 57240 [1] 57240 [1] "testing skipping spike filter" [1] 57240 [1] 57240 [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 22:17:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.757" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 4 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 8 MR FC 2 jog(s) with SP SD > 1000" [1] "103 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.757" [1] "Removing 2 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 4 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 8 RC FC 2 jog(s) with SP SD > 1000" [1] "106 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:17:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:17:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:17:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:17:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 106 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 7 row(s) with variable TFCELL" [1] "TEMP: 840 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:17:30 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 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.945 co2off = 394.27 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 8.14 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.01 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 2 4 209 217 0.5535728 0.5591408 0.5570522 2 5.130464 378.7048 3 2 218 226 0.5598361 0.5654039 0.5633164 2 -24.068134 528.3961 5 2 506 514 0.7622838 0.7678483 0.7657616 3 -24.084893 527.7781 6 4 515 524 0.7685436 0.7748032 0.7723687 3 5.146195 379.8030 7 3 525 533 0.7754988 0.7810625 0.7803669 3 -4.647830 460.2267 9 4 801 809 0.9710255 0.9765929 0.9745045 2 5.069009 380.2511 10 2 810 818 0.9772883 0.9828558 0.9807680 2 -24.180384 528.5661 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.196132 1.321834 4.830177e-03 -4.5264921 0.010740418 21.969659 3 1.196689 1.322323 -8.294170e-05 3.4699492 0.002450401 13.630969 5 1.192313 1.319879 -4.211958e-04 -4.7850515 0.002796416 13.600624 6 1.192051 1.319532 5.269331e-05 0.4888227 0.006060193 4.137965 7 1.191858 1.319163 -1.031922e-03 -2.5986142 0.002526092 2.968908 9 1.193429 1.321343 6.725308e-04 -4.7221260 0.001738215 10.412580 10 1.193240 1.320845 -4.138439e-03 -0.1830753 0.010579525 6.853500 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.402 co2l1 = 0.945 co2l0 = 0.002" [1] "co2l0 = -195.09 co2l1 = 0.214" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "66 out of 330 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "264 out of 737 1-min values rejected as stack air" [1] "264 out of 737 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"