[1] "2025-04-29 18:30:21 MDT" [1] "1304" "130421" "d111" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130421a.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 18:30:25 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.767" [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] "199 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.767" [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] "197 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:30:25 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:30:25 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:30:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:30:42 MDT" [1] "reading in recalculated plot titles" [1] "Removed 197 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1238 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:30:53 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 = -448.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.7" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.362 co2off = 384.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.15 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 5 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 9 0.001812500 0.007380122 0.00529227 3 -15.11423 96.794462 2 4 10 19 0.008075492 0.014338715 0.01190340 3 71.50391 -63.476496 3 3 20 29 0.015034057 0.021296788 0.02025373 3 41.57500 6.920626 6 2 284 291 0.216842593 0.223105353 0.22066934 1 -15.47157 95.684206 9 2 543 552 0.418701389 0.424960648 0.42252639 3 -14.29401 97.950193 10 4 553 561 0.426355150 0.431918953 0.42983241 3 71.24908 -61.542089 11 3 562 571 0.432614468 0.438877257 0.43783392 3 41.64039 8.008114 13 4 796 805 0.627451968 0.633715191 0.63127911 2 71.47770 -60.418678 14 2 806 815 0.634410619 0.640673611 0.63823836 2 -14.42211 98.058519 16 2 1053 1058 0.836218374 0.841785851 0.84074250 3 -13.68565 97.592412 17 4 1059 1067 0.843872049 0.849436343 0.84734970 3 71.18695 -61.677927 19 3 1077 1085 0.857098380 0.863363050 0.86266770 3 41.87285 11.448010 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.323012 1.319609 -0.0057317438 -0.62271558 0.013480393 2.990825 2 1.322680 1.319242 -0.0053046974 0.09349043 0.020681846 2.772517 3 1.322227 1.318800 -0.0054491758 2.39859451 0.014701988 3.122508 6 1.316469 1.312734 0.0428118318 -0.16353968 0.124488927 3.382369 9 1.308845 1.304563 -0.0146908180 -0.09742948 0.036338307 2.217991 10 1.308308 1.303994 0.0063965867 -0.01711910 0.015463192 1.613998 11 1.307760 1.303437 -0.0081054752 0.72044782 0.020215489 1.002022 13 1.304358 1.299827 0.0012938125 -0.55667416 0.014451572 2.940741 14 1.304157 1.299598 0.0232910317 2.00720074 0.059518002 5.139985 16 1.296537 1.291427 -0.0195711292 1.72626547 0.028328993 2.272396 17 1.295613 1.290460 -0.0004812621 0.54826821 0.007707412 1.946955 19 1.294892 1.289733 0.0055303112 -0.28058815 0.016429525 1.450986 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.648 co2l1 = 0.362 co2l0 = 0.131" [1] "co2l0 = -98.35 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "19 out of 315 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "296 out of 1053 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "296 out of 1053 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"