[1] "2025-04-29 17:16:27 MDT" [1] "1212" "121113" "d318" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121113a.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 17:16:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.788" [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] "356 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.788" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "358 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:16:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:16:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:16:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:16:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 358 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1078 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:17:04 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.426 co2off = 372.14 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.01 minutes" [1] "Average Cal: 6.87 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 116 123 0.1091849 0.1140544 0.1123159 2 65.623021 44.64371 4 2 124 131 0.1168403 0.1217120 0.1199705 2 -6.331083 204.76643 7 2 354 360 0.3193391 0.3235116 0.3221208 3 -6.655550 206.16491 8 4 361 367 0.3269927 0.3311655 0.3297744 3 65.907775 41.65906 10 3 373 382 0.3388189 0.3450818 0.3440387 3 40.989102 114.76674 13 4 574 579 0.5267067 0.5322741 0.5307093 2 66.117471 43.18069 14 2 580 584 0.5336648 0.5385365 0.5371456 2 -6.869164 199.56840 17 2 791 796 0.7355225 0.7390000 0.7379566 3 -6.976469 210.04314 18 4 797 806 0.7424776 0.7487407 0.7463040 3 66.299617 32.56910 19 3 807 812 0.7522177 0.7556956 0.7560434 3 41.098078 111.15199 22 4 1015 1020 0.9444135 0.9478907 0.9468476 2 66.371516 39.20532 23 2 1021 1030 0.9513681 0.9576308 0.9551966 2 -7.048336 198.89055 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.278038 1.258990 0.0015621957 1.3987069 0.005601711 2.798479 4 1.278427 1.259413 0.0001862398 0.5112192 0.003445937 2.404958 7 1.285244 1.266428 -0.0011110690 -1.4100588 0.002707917 4.654622 8 1.285218 1.266448 -0.0045864509 2.1122529 0.007893654 3.376695 10 1.285380 1.266579 0.0011852391 4.2602509 0.003706133 5.668472 13 1.288885 1.270162 0.0006625327 0.3528344 0.002077362 1.506014 14 1.289142 1.270329 -0.0078459211 1.9616190 0.020813923 5.293103 17 1.293385 1.274968 -0.0110567245 6.8622032 0.014440296 9.031005 18 1.293228 1.274843 0.0058317838 -1.4648934 0.016164902 11.681749 19 1.293176 1.274859 -0.0034388445 9.6690471 0.007511688 6.848444 22 1.293201 1.275254 -0.0025151731 -2.3158306 0.003395146 6.135643 23 1.293258 1.275387 -0.0149585061 4.8191728 0.041372342 17.520820 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.226 co2l1 = 0.426 co2l0 = 0.04" [1] "co2l0 = -121.29 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "84 out of 915 1-min values rejected as stack air" [1] "2 out of 815 Line 1 1-min values rejected as stack air" [1] "82 out of 100 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"