[1] "2025-04-29 23:47:37 MDT" [1] "1504" "150428" "d118" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150428a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85080 63 [1] 85080 [1] 85080 [1] "testing skipping spike filter" [1] 85080 [1] 85080 [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 23:47:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.759" [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] "303 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.759" [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] "303 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:47:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:47:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:48:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:48:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 303 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1114 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:48:08 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -478.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.954 co2off = 419.32 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.08 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 127 136 0.08872373 0.09498339 0.09254910 3 -32.770148 271.3835 3 4 137 146 0.09567867 0.10193773 0.09950377 3 -3.813641 124.7946 4 5 147 156 0.10263310 0.10889245 0.10784910 NA -14.672094 183.5980 5 3 157 166 0.10958805 0.11584722 0.11480395 3 -15.265797 211.9990 7 4 403 412 0.29715052 0.30341045 0.30097610 2 -3.880227 118.1840 8 2 413 422 0.30410584 0.31036916 0.30793333 2 -32.856289 270.7376 10 2 612 621 0.50591516 0.51217824 0.50974396 3 -32.935445 267.4125 11 4 622 626 0.51356927 0.51635185 0.51565610 3 -3.975937 122.6309 12 3 627 635 0.51982888 0.52611071 0.52517689 3 -15.439051 216.1977 14 4 776 780 0.71474893 0.71892237 0.71776307 2 -4.034854 122.3312 15 2 781 787 0.72170477 0.72588325 0.72449251 2 -33.017988 267.1837 19 2 1013 1019 0.92496861 0.92984144 0.92817132 3 -33.089016 265.7142 20 4 1020 1028 0.93053704 0.93680330 0.93451531 3 -4.115154 123.9231 21 3 1029 1038 0.93749887 0.94375819 0.94271518 3 -15.591859 211.1452 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.198286 1.331017 -0.0021446404 -0.06393761 0.0058609194 2.491627 3 1.198126 1.330830 0.0006954665 -1.34039705 0.0044889186 3.836088 4 1.198185 1.330904 -0.0013102616 -3.35437471 0.0009280777 4.436008 5 1.198086 1.330810 0.0011219741 3.55980890 0.0032870060 4.952297 7 1.192635 1.324515 -0.0015828940 0.55774075 0.0047214766 9.720029 8 1.192203 1.324007 -0.0041645761 -1.34178957 0.0131604088 3.784243 10 1.186958 1.318072 -0.0009532323 -1.18017742 0.0028536547 4.070763 11 1.186553 1.317678 0.0035243156 -1.92447492 0.0035810918 1.928333 12 1.186660 1.317656 0.0003927765 2.45098817 0.0037086749 3.993336 14 1.181820 1.311151 0.0010487349 -0.87740427 0.0021869047 1.884663 15 1.181657 1.310962 -0.0062043691 -1.49000453 0.0106610968 3.477358 19 1.176225 1.305382 -0.0010983889 0.51785346 0.0029278797 5.798677 20 1.175934 1.305028 0.0006115209 0.56314751 0.0032050703 4.726949 21 1.175797 1.304855 0.0007534798 0.71620547 0.0040970032 1.295207 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.019 co2l1 = 0.953 co2l0 = 0.016" [1] "co2l0 = -140.42 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "57 out of 305 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "248 out of 929 1-min values rejected as stack air" [1] "223 out of 889 Line 1 1-min values rejected as stack air" [1] "25 out of 40 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"