[1] "2025-04-29 17:42:31 MDT" [1] "1301" "130114" "d014" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130114a.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 17:42:36 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.769, ave o2scale2 = 0.775" [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] "4 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.769, ave o2scale2 = 0.775" [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] "4 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:42:36 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:42:36 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:42:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:42:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:43:19 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 = -448.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [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 = 0.396 co2off = 380.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 122 131 0.08728244 0.09354291 0.09110826 3 -16.35635 93.106145 3 4 132 141 0.09423837 0.10049769 0.09806369 3 62.06805 -64.258278 4 3 142 151 0.10119329 0.10745602 0.10641279 3 35.03585 3.401060 6 4 422 431 0.29597720 0.30223663 0.29980255 2 62.18005 -65.238332 7 2 432 441 0.30293203 0.30919531 0.30676114 2 -16.70331 95.918275 8 5 442 451 0.30989071 0.31615032 0.31510702 NA 29.00091 -13.877211 10 2 721 730 0.50467948 0.51093889 0.50850444 3 -16.36064 93.359844 11 4 731 740 0.51163426 0.51789355 0.51545952 3 62.05455 -64.684398 12 3 741 750 0.51858944 0.52484864 0.52380562 3 35.02109 3.558377 14 4 1021 1030 0.71337616 0.71963921 0.71720458 2 62.14617 -66.466387 15 2 1031 1040 0.72033449 0.72659722 0.72416322 2 -16.35031 93.946815 17 2 1321 1330 0.92207054 0.92833333 0.92589612 3 -16.07834 93.017618 18 4 1331 1340 0.92902894 0.93528779 0.93285367 3 62.09452 -64.959686 19 5 1341 1350 0.93598319 0.94224274 0.94119956 NA 28.86306 -13.821722 20 3 1351 1360 0.94293814 0.94919792 0.94815435 3 35.15440 5.353246 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.302422 1.291697 -0.0056207232 0.6684505 0.014920322 2.3345105 3 1.302206 1.291478 0.0046291644 -0.3692358 0.018884126 2.1483941 4 1.302170 1.291477 -0.0028510989 1.6639354 0.008125339 2.3697489 6 1.301701 1.290968 0.0006275988 -0.8018301 0.007544543 2.2310704 7 1.301927 1.291194 0.0047429820 1.4209006 0.014579906 5.0966664 8 1.301958 1.291242 0.0443727897 -0.9856272 0.031422058 1.6696593 10 1.301451 1.290644 -0.0137075078 0.9313071 0.035112268 2.7642756 11 1.301170 1.290375 0.0043563792 0.1989327 0.017829439 1.5143899 12 1.301244 1.290420 0.0009163694 0.1130236 0.012237691 0.7521436 14 1.301114 1.290245 -0.0037633132 1.3423577 0.012017321 3.5836547 15 1.301114 1.290243 -0.0200896125 1.3051264 0.050169590 3.5763677 17 1.298655 1.287733 0.0001357233 0.1724721 0.006154352 2.4050724 18 1.298347 1.287392 0.0020244075 0.1273498 0.011120532 4.7980231 19 1.297991 1.287059 0.0398235612 0.8944119 0.028195883 1.2564607 20 1.297752 1.286765 0.0048797155 2.5161982 0.015072257 4.0248998 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.834 co2l1 = 0.396 co2l0 = 0.153" [1] "co2l0 = -97.68 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "16 out of 55 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "39 out of 1225 1-min values rejected as stack air" [1] "39 out of 1225 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"