[1] "2025-04-30 01:10:56 MDT" [1] "1601" "160131" "d031" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160131a.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] "2025-04-30 01:11:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.9, ave o2scale2 = 0.794" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "10 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.9, ave o2scale2 = 0.794" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "10 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:11:00 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:11:00 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:11:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:11:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 32 row(s) with low FLSP" [1] "Removed 301 row(s) with high TFRIDGE" [1] "TEMP: 1088 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:11:23 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.949 co2off = 394.46 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.25 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.07 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 7 0.0006539931 0.004826794 0.003435926 1 1.072175 385.3395 4 4 253 262 0.2002763889 0.206535706 0.204101385 2 1.120227 378.7541 5 2 263 272 0.2072309606 0.213490741 0.211056120 2 -21.581742 494.4167 7 2 553 562 0.4089468171 0.415206019 0.412771962 3 -21.549156 504.2255 8 4 563 572 0.4159016204 0.422164352 0.419729199 3 1.153578 379.9153 9 3 573 582 0.4228597801 0.429122685 0.428079485 3 -12.428414 476.8500 11 4 851 860 0.6173762153 0.623677633 0.621226403 2 1.169766 378.8624 12 2 861 870 0.6243789931 0.630680584 0.628230921 2 -21.546273 495.3519 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.105727 1.256107 0.0029768228 0.01733218 0.004859631 6.157286 4 1.107472 1.256138 0.0017569473 0.43550938 0.005004678 3.508755 5 1.107697 1.256365 0.0015844565 0.67068245 0.004392876 3.857952 7 1.109836 1.258435 -0.0015499073 0.93257010 0.004202996 14.467358 8 1.109784 1.258394 0.0028989591 1.03353027 0.008005840 3.780294 9 1.109880 1.258523 0.0006316128 1.95813147 0.001815711 2.850840 11 1.111120 1.259838 -0.0010020734 0.95905304 0.003079807 3.276152 12 1.111414 1.260153 -0.0001321170 0.00734980 0.004609523 1.771502 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 405.112 co2l1 = 0.947 co2l0 = 0.001" [1] "co2l0 = -198.52 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "23 out of 45 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "22 out of 975 1-min values rejected as stack air" [1] "22 out of 975 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"