[1] "2025-04-29 19:09:47 MDT" [1] "1306" "130630" "d181" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130630a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85306 63 [1] 85306 [1] 85306 [1] "testing skipping spike filter" [1] 85306 [1] 85306 [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 19:09:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.766, ave o2scale2 = 0.71" [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] "131 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.766, ave o2scale2 = 0.71" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "133 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:09:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:09:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:10:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:10:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 133 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1287 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:10:09 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.304 co2off = 369.76 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.52 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 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 6 [3,] 7 8 [4,] 9 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 206 215 0.1553076 0.1615706 0.1591342 2 49.34949 160.80556 3 2 216 224 0.1622662 0.1685289 0.1660428 2 -18.58273 244.37324 5 2 475 484 0.3640856 0.3703450 0.3679108 3 -18.61123 246.60718 6 4 485 494 0.3710405 0.3773005 0.3748663 3 49.23945 160.81461 7 5 495 504 0.3779958 0.3842558 0.3832125 NA 39.30522 147.33113 8 3 505 514 0.3849514 0.3912107 0.3901673 3 84.94197 87.51779 10 4 768 777 0.5728134 0.5790761 0.5766414 2 49.37548 157.36803 11 2 778 787 0.5797714 0.5860343 0.5836002 2 -18.65970 255.64663 13 4 910 915 0.7113530 0.7162211 0.7151777 1 49.16947 153.71303 17 4 1165 1170 0.9047732 0.9082503 0.9072073 2 49.31605 155.09826 18 2 1171 1180 0.9117316 0.9179944 0.9155589 2 -18.89769 245.59871 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.300387 1.404272 -0.0070743302 -0.2059853 0.025290311 2.088089 3 1.300181 1.403983 0.0042806263 -0.6488699 0.014921615 6.621350 5 1.303605 1.407591 -0.0319666321 -1.1569970 0.078857544 3.818558 6 1.303650 1.407630 -0.0064020472 1.5860381 0.025635620 5.045794 7 1.303860 1.407828 -0.0805498939 2.8830544 0.057054678 6.488667 8 1.304075 1.408064 0.0004678779 -1.3132054 0.008588172 2.276835 10 1.309327 1.413708 0.0010730247 0.1623145 0.008850629 2.515707 11 1.309638 1.413955 -0.0056708855 1.2832289 0.016500015 10.850529 13 1.309327 1.411819 -0.0129288150 7.9229870 0.016918501 10.597049 17 1.309730 1.412168 0.0066602978 -2.2925037 0.008926694 4.101370 18 1.309930 1.412356 0.0015046125 0.2528752 0.009782341 1.646712 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.002 co2l1 = 0.303 co2l0 = 0.132" [1] "co2l0 = -131.2 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "35 out of 292 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "257 out of 1127 1-min values rejected as stack air" [1] "171 out of 1018 Line 1 1-min values rejected as stack air" [1] "86 out of 109 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"