[1] "2025-04-29 16:45:53 MDT" [1] "1207" "120707" "d189" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120707a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 16:45:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.748, ave o2scale2 = 0.755" [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] "126 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.748, ave o2scale2 = 0.755" [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] "126 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:45:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:45:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:46:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:46:19 MDT" [1] "reading in recalculated plot titles" [1] "Removed 126 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1310 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:46:37 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 = -450.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.4" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.42 O2 = -582.4" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.28 O2 = -550.8" [1] "Nominal linear calibrations:" [1] "co2scl = 0.969 co2off = 384.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.4 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 167 176 0.1345494 0.1408091 0.1383751 2 9.309203 -36.33896 4 2 177 186 0.1415046 0.1477639 0.1453298 2 -22.708133 120.58428 7 2 448 457 0.3431956 0.3494549 0.3470209 2 -22.714492 119.97129 8 4 458 463 0.3529323 0.3564098 0.3553667 2 9.308859 -36.20377 9 5 464 473 0.3571053 0.3633646 0.3623213 NA -2.300656 11.22095 12 4 703 712 0.5518398 0.5580992 0.5556650 2 9.344586 -35.43887 13 2 713 718 0.5587946 0.5622720 0.5612286 2 -22.666297 117.24493 16 2 974 983 0.7605035 0.7667626 0.7643283 3 -22.882133 118.06158 17 4 984 993 0.7674578 0.7737173 0.7712831 3 9.219195 -41.47124 18 3 994 1003 0.7744126 0.7806720 0.7796289 3 -1.553437 24.97092 21 4 1270 1279 0.9691933 0.9754526 0.9730185 2 9.266078 -36.95627 22 2 1280 1286 0.9761481 0.9824074 0.9797648 2 -22.791813 116.52119 23 5 1287 1296 0.9831030 0.9893623 0.9883189 NA -2.371063 11.73133 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.339045 1.327875 -0.0027757368 0.27647309 0.008640950 2.750601 4 1.339105 1.327934 -0.0003632939 0.07544954 0.005141897 2.207083 7 1.337849 1.326639 0.0001329807 1.00278178 0.003008811 8.071675 8 1.337660 1.326436 0.0018037525 -0.83820341 0.002413274 2.368987 9 1.337617 1.326380 0.0050544970 1.19910617 0.003579728 1.866861 12 1.337194 1.325968 -0.0005846585 0.53084383 0.001790332 1.811360 13 1.337209 1.325980 -0.0030263151 2.69616446 0.005518052 3.856813 16 1.334544 1.323313 -0.0018357697 2.23743983 0.004800651 5.720819 17 1.334161 1.322913 0.0016678866 0.25510007 0.005549738 1.980872 18 1.333842 1.322592 0.0048317472 2.80693267 0.013697220 3.957933 21 1.332705 1.321304 -0.0022067137 -0.14339672 0.005893469 1.869391 22 1.332842 1.321408 -0.0009636263 0.98774140 0.004516458 4.543611 23 1.332623 1.321207 -0.0023710483 -3.48581033 0.001679379 5.085026 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.335 co2l1 = 0.968 co2l0 = 0.023" [1] "co2l0 = -103.93 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "60 out of 640 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "580 out of 1125 1-min values rejected as stack air" [1] "568 out of 622 Line 1 1-min values rejected as stack air" [1] "12 out of 503 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"