[1] "2025-04-29 18:57:37 MDT" [1] "1306" "130612" "d163" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130612a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 18:57:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.785, ave o2scale2 = 0.729" [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] "116 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.785, ave o2scale2 = 0.729" [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] "118 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:57:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:57:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:58:02 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:58:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 118 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1317 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:58:20 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 = -447.7" [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 = 394.07 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 = 0.299 co2off = 385.78 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.62 minutes" [1] "Shortest Cal: 5.02 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 77 84 0.06553712 0.07040625 0.06866722 3 -24.69332 243.98941 3 4 85 94 0.07110182 0.07736458 0.07492814 3 44.29312 142.63845 5 3 101 110 0.08501505 0.09127786 0.09023390 3 80.36792 83.79010 7 4 333 342 0.27289028 0.27915385 0.27671841 2 44.33659 157.32651 8 2 343 352 0.27984878 0.28611209 0.28367764 2 -24.93111 246.24924 10 2 625 634 0.48171580 0.48798009 0.48554202 3 -24.83809 244.55228 11 4 635 644 0.48867541 0.49494288 0.49250558 3 44.41145 159.76028 12 3 645 654 0.49563822 0.50190162 0.50085854 3 80.56898 87.91885 14 4 920 929 0.69066140 0.69692622 0.69449088 2 44.19565 150.54862 15 2 930 939 0.69762567 0.70390038 0.70145981 2 -25.17502 247.65879 16 5 940 949 0.70459578 0.71085874 0.70981542 NA 32.59669 137.53784 18 2 1193 1202 0.89953247 0.90579757 0.90335925 3 -24.66589 246.84077 19 4 1203 1208 0.90927520 0.91275787 0.91171177 3 44.41931 155.45621 20 3 1209 1218 0.91345712 0.91972917 0.91868495 3 80.49244 87.28731 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.278478 1.377050 -0.0093469995 -0.8233606 0.017846455 2.881406 3 1.278078 1.376687 0.0040157749 -0.1515579 0.012835299 26.538989 5 1.277472 1.376088 0.0051997214 -1.4296487 0.014249599 1.879089 7 1.273368 1.371687 -0.0025623440 0.8153470 0.013598103 3.544356 8 1.273281 1.371601 -0.0177380683 0.8569910 0.050734436 3.808938 10 1.272473 1.370617 -0.0065642077 -0.3147272 0.017026634 3.106021 11 1.272305 1.370435 0.0112294215 1.0854213 0.031429475 3.719866 12 1.272096 1.370208 0.0094819556 3.4392365 0.024286812 6.396520 14 1.271833 1.369941 -0.0164894160 -0.5407011 0.043575634 6.531421 15 1.271871 1.369980 -0.0197862379 2.1331930 0.053868038 5.352164 16 1.271869 1.369951 -0.0879856893 -0.2211764 0.062313785 1.951974 18 1.275525 1.374021 0.0210776536 0.8550543 0.066378789 3.814002 19 1.275588 1.374058 -0.0167026521 3.3576638 0.022176200 5.255889 20 1.275708 1.374209 0.0001495792 -3.1130692 0.005197012 4.323448 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.721 co2l1 = 0.296 co2l0 = 0.15" [1] "co2l0 = -130.71 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "60 out of 285 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "225 out of 1120 1-min values rejected as stack air" [1] "225 out of 1120 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"