[1] "2025-04-30 01:32:53 MDT" [1] "1605" "160613" "d165" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160613a.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] "2025-04-30 01:32:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.971, ave o2scale2 = 0.818" [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] "43 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.971, ave o2scale2 = 0.818" [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] "43 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:32:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:32:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:33:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:33:15 MDT" [1] "reading in recalculated plot titles" [1] "Removed 43 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 174 row(s) with low FLSP" [1] "TEMP: 1217 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:33:18 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.7" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.948 co2off = 406.77 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.48 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.1240304 0.1295983 0.1275094 2 3.761080 94.11741 2 2 10 19 0.1302936 0.1365567 0.1341204 2 -18.988992 209.02399 4 2 292 296 0.3327242 0.3382918 0.3366676 3 -19.188354 209.91958 5 4 297 301 0.3424686 0.3452501 0.3445547 3 3.553333 94.32252 7 3 311 320 0.3529007 0.3591606 0.3581172 3 -10.060086 193.51364 9 4 573 582 0.5407127 0.5469719 0.5445377 2 3.528437 98.96431 10 2 583 592 0.5476672 0.5539305 0.5514951 2 -19.227148 209.25192 12 2 859 868 0.7491377 0.7553968 0.7529626 3 -19.126102 205.56161 13 4 869 878 0.7560922 0.7623536 0.7599178 3 3.614148 91.82491 14 3 879 888 0.7630511 0.7693103 0.7682671 3 -9.954234 192.62065 16 4 1157 1166 0.9578183 0.9640777 0.9616438 2 3.781898 96.05116 17 2 1167 1176 0.9647731 0.9710329 0.9685988 2 -18.963289 209.69689 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.039922 1.233186 1.250956e-03 0.36966151 0.0042080829 2.518585 2 1.039666 1.232841 -2.078528e-03 -0.05868409 0.0085659494 3.039409 4 1.026678 1.218840 -1.103544e-05 1.33586522 0.0006912775 4.357800 5 1.025134 1.217167 1.061092e-03 2.93736790 0.0010921119 2.994056 7 1.025150 1.217236 -3.158009e-04 -2.72645039 0.0045495704 3.568350 9 1.023268 1.214667 -1.530652e-04 -0.82786323 0.0035410539 4.092088 10 1.023565 1.214956 -1.325551e-03 0.36615840 0.0043119096 4.029632 12 1.027720 1.218667 -2.283051e-03 -0.41307094 0.0060766071 3.021344 13 1.027801 1.218728 -3.873794e-04 -1.55595933 0.0063656214 4.105200 14 1.028038 1.218976 2.634663e-03 -1.63443069 0.0073517908 2.209803 16 1.035353 1.226854 9.606720e-04 0.38856590 0.0024608401 3.116967 17 1.035638 1.227173 -2.378150e-03 0.40964438 0.0067681582 3.384079 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 402.728 co2l1 = 0.945 co2l0 = -0.006" [1] "co2l0 = -137.53 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "5 out of 5 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1064 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 1064 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"