[1] "2025-04-29 17:56:13 MDT" [1] "1301" "130202" "d033" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130202a.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 17:56:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.786" [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] "27 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.786" [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] "27 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:56:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:56:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:56:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:56:37 MDT" [1] "reading in recalculated plot titles" [1] "Removed 27 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1407 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:56:50 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 = -448.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.7" [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 = 0.401 co2off = 388.89 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.57 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 245 251 0.1745888 0.1787616 0.1773706 2 64.94818 -62.1841908 3 2 252 260 0.1801562 0.1864156 0.1838324 2 -12.49915 97.1346868 5 2 537 546 0.3819001 0.3881641 0.3857288 3 -12.31087 96.7975196 6 4 547 556 0.3888593 0.3951191 0.3926848 3 65.03972 -62.6170926 7 5 557 566 0.3958146 0.4020745 0.4010312 NA 32.63653 -11.0618467 8 3 567 575 0.4027698 0.4083337 0.4076383 3 38.57488 10.8274373 10 4 833 841 0.5912073 0.5968058 0.5947043 2 65.22327 -62.3947764 11 2 842 851 0.5975069 0.6037962 0.6013569 2 -12.04845 90.2074905 13 2 1128 1137 0.7994703 0.8057344 0.8032991 3 -12.75898 103.6790223 14 4 1138 1146 0.8064306 0.8126933 0.8102077 3 65.28440 -74.3278379 15 3 1147 1156 0.8133892 0.8196505 0.8186071 3 38.53953 -0.2737649 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.285644 1.271366 -0.0094295348 -0.9920452 0.015733213 2.364358 3 1.285325 1.271014 -0.0278630173 1.2146090 0.075125968 3.540837 5 1.289959 1.275904 0.0106302283 1.3046202 0.028503426 3.676417 6 1.290077 1.276008 -0.0008556685 0.2623375 0.013821971 2.243344 7 1.290189 1.276091 0.0331419298 1.6363071 0.023467106 2.366196 8 1.290470 1.276377 0.0038071761 1.0824145 0.011473021 1.085505 10 1.288845 1.274942 -0.0105772161 0.3298032 0.026205262 2.206741 11 1.288839 1.274955 0.0079111936 -5.7788290 0.024003086 23.913969 13 1.285954 1.272159 -0.0021446396 2.1564204 0.016455254 8.821622 14 1.285942 1.272296 -0.0008097853 -1.5264829 0.012927718 15.128209 15 1.285917 1.272167 -0.0001885365 5.7027007 0.008619758 7.852564 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.306 co2l1 = 0.4 co2l0 = 0.089" [1] "co2l0 = -97.95 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "94 out of 316 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "222 out of 1266 1-min values rejected as stack air" [1] "133 out of 1108 Line 1 1-min values rejected as stack air" [1] "89 out of 158 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"