[1] "2025-04-29 22:02:13 MDT" [1] "1408" "140916" "d259" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140916a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85920 63 [1] 85920 [1] 85920 [1] "testing skipping spike filter" [1] 85920 [1] 85920 [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 22:02:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.758" [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] "40 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.758" [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] "39 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:02:18 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:02:18 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:02:36 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:02:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 39 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 450 manually filtered row(s) from a screenall period" [1] "Removed 2 row(s) with low FLWTA" [1] "TEMP: 940 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:02:45 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 = -476.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.477 co2off = 382.61 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.91 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.08 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 157 166 0.1093242 0.1155836 0.1131494 2 34.26023 143.4200 1.186699 3 2 167 176 0.1162790 0.1225382 0.1201042 2 -23.80896 284.4584 1.186446 4 5 177 186 0.1232338 0.1294968 0.1284537 NA 12.61697 196.6804 1.186286 7 2 452 460 0.3187165 0.3242841 0.3221942 3 -24.08853 285.9560 1.186287 8 4 461 470 0.3249795 0.3312386 0.3288046 3 33.93879 139.3547 1.186175 9 3 471 478 0.3319347 0.3381937 0.3378461 3 14.24582 223.5297 1.185704 13 4 743 752 0.5270466 0.5333493 0.5308978 2 33.62582 133.1306 1.185994 14 2 753 762 0.5340498 0.5403537 0.5379021 2 -24.39302 284.4359 1.186079 jfcv2 co2slp o2slp co2sd o2sd 2 1.319948 -0.0060827203 0.1942296 0.015649122 4.323227 3 1.319675 -0.0033339134 2.7015765 0.011788876 7.655986 4 1.319473 -0.0014353470 -1.9475165 0.001016466 2.616842 7 1.319472 -0.0029058207 0.6800018 0.007402567 4.674727 8 1.319433 -0.0002071124 1.5502078 0.008190051 6.890849 9 1.318884 -0.0061757688 1.5536960 0.019077368 1.099819 13 1.319138 0.0012274469 0.2460617 0.012934003 2.326504 14 1.319271 -0.0031837067 2.2184428 0.012715506 6.137504 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 388.1 co2l1 = 0.476 co2l0 = 0.098" [1] "co2l0 = -143.96 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "32 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "103 out of 820 1-min values rejected as stack air" [1] "96 out of 373 Line 1 1-min values rejected as stack air" [1] "7 out of 447 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"