[1] "2025-04-29 22:49:03 MDT" [1] "1501" "150106" "d006" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150106a.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 22:49:07 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.762" [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] "90 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.762" [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] "90 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:49:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:49:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:49:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:49:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 90 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1346 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:49:31 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 = -477.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.936 co2off = 378.72 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.24 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 116 125 0.09615159 0.1024145 0.09997871 2 15.174258 133.8890 3 2 126 135 0.10310995 0.1093692 0.10693490 2 -14.361812 273.8792 5 2 404 413 0.30486319 0.3111222 0.30868802 3 -14.335781 280.5555 6 4 414 423 0.31181742 0.3180769 0.31564292 3 15.202219 132.7248 7 3 424 433 0.31877263 0.3250323 0.32398875 3 5.311203 212.2760 9 4 702 711 0.51356973 0.5198329 0.51739778 2 15.168625 133.0237 10 2 712 719 0.52052827 0.5253970 0.52365802 2 -14.359438 282.9023 11 5 720 729 0.52748299 0.5337423 0.53269919 NA 3.985156 195.6902 13 2 987 992 0.72503819 0.7285151 0.72747211 3 -14.356891 272.9459 14 4 993 1002 0.72921123 0.7354700 0.73303614 3 15.171461 134.2951 15 3 1003 1008 0.73825266 0.7417302 0.74242555 3 5.283500 214.0120 17 4 1257 1266 0.93097338 0.9372373 0.93480033 2 15.121602 134.5006 18 2 1267 1276 0.93793275 0.9441957 0.94176016 2 -14.414867 274.6259 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.181638 1.311224 -0.0006881906 -0.60992691 0.003489371 4.587124 3 1.181696 1.311268 -0.0041782244 -0.07300186 0.010830677 1.599176 5 1.181835 1.311339 0.0016032802 0.46693106 0.007035148 1.480640 6 1.181756 1.311254 0.0013625832 0.39365356 0.004078335 2.242805 7 1.181871 1.311398 -0.0003639600 0.90054895 0.004290608 1.487474 9 1.182693 1.312204 0.0001822151 -0.56465874 0.002337342 4.503759 10 1.182825 1.312359 -0.0035513025 0.02513152 0.007944534 1.195755 11 1.183080 1.312643 -0.0070539764 0.40225946 0.004993942 3.532985 13 1.182980 1.312484 0.0010048880 -1.92476009 0.002796657 4.882516 14 1.183043 1.312542 0.0025447040 -0.91350929 0.006531683 2.408546 15 1.182992 1.312751 0.0027954691 1.60390213 0.004068105 2.271095 17 1.185213 1.314904 -0.0009303128 -0.16691186 0.003660683 2.953852 18 1.185152 1.314831 -0.0026435750 -0.31896959 0.007664814 2.232478 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 390.058 co2l1 = 0.935 co2l0 = 0.001" [1] "co2l0 = -143.5 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "91 out of 225 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "134 out of 1174 1-min values rejected as stack air" [1] "134 out of 1174 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"