[1] "2025-04-29 20:42:26 MDT" [1] "1402" "140228" "d059" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140228a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:42:30 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.741" [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] "4 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.741" [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] "4 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:42:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:42:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:42:45 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:42:47 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:42:53 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 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [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 = 0.438 co2off = 378.74 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.14 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 122 131 0.08546386 0.09180819 0.08930130 2 58.584461 159.1326 3 2 132 141 0.09250356 0.09880095 0.09635769 2 -5.015828 305.4825 5 2 421 430 0.29427364 0.30053270 0.29809872 3 -4.785617 304.5757 6 4 431 440 0.30122813 0.30748779 0.30505369 3 58.454070 160.9589 7 3 441 450 0.30818310 0.31444245 0.31339940 3 36.783680 243.0318 9 4 721 730 0.50294922 0.50921264 0.50677636 2 58.330648 152.5002 10 2 731 740 0.50990802 0.51616785 0.51373331 2 -4.560070 295.9638 11 5 741 750 0.51686343 0.52312619 0.52208309 NA 32.904313 220.8132 13 2 1020 1029 0.71162891 0.71788877 0.71545458 3 -4.773805 305.4232 14 4 1030 1039 0.71858414 0.72484334 0.72240920 3 58.334422 164.2228 15 3 1040 1049 0.72553872 0.73179861 0.73075522 3 36.729516 243.7811 17 4 1319 1328 0.92030093 0.92656001 0.92412582 2 58.283656 159.1867 18 2 1329 1338 0.92725579 0.93351571 0.93108116 2 -4.640625 300.8477 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.234908 1.355423 -0.0036939186 -0.898806442 0.013312686 4.893672 3 1.234828 1.355336 -0.0024267806 1.087272428 0.010273533 5.397518 5 1.231436 1.351887 0.0012191805 2.093236426 0.006845671 6.846431 6 1.231127 1.351556 0.0048785832 0.372251598 0.013576767 1.692465 7 1.230972 1.351388 -0.0020692599 -2.126911688 0.008603392 3.474620 9 1.226983 1.347120 -0.0028895939 -2.952364206 0.010488351 9.769845 10 1.227021 1.347158 -0.0008043589 3.755846734 0.008879428 13.163353 11 1.226841 1.346983 -0.0363250531 -1.464134155 0.025721009 1.907130 13 1.227299 1.347202 -0.0073488634 0.476415438 0.019527409 3.366470 14 1.227406 1.347370 0.0081242736 0.794097322 0.022871530 4.791774 15 1.227521 1.347567 -0.0002124549 0.772947563 0.008958781 2.536023 17 1.225040 1.344998 0.0067279861 0.008623234 0.017882959 9.671690 18 1.224819 1.344768 0.0011859782 2.067128992 0.007256232 5.385764 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.715 co2l1 = 0.437 co2l0 = 0.016" [1] "co2l0 = -149.12 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1250 1-min values rejected as stack air" [1] "0 out of 1250 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] "making html"