[1] "2025-04-29 18:17:48 MDT" [1] "1303" "130321" "d080" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130321a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 18:17:52 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.778, ave o2scale2 = 0.783" [1] "Removing 1 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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "198 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.778, ave o2scale2 = 0.783" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "197 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:17:53 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:17:53 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:18:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:18:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 197 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1235 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:18:22 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 = -448.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.403 co2off = 371.8 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.84 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 5 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 239 248 0.1726916 0.1789543 0.1765201 3 -6.184500 195.66280 3 4 249 258 0.1796497 0.1859135 0.1834786 3 70.545219 45.58653 4 3 259 268 0.1866120 0.1928749 0.1918298 3 44.146492 121.21573 6 4 531 540 0.3816541 0.3879142 0.3854796 1 70.757297 45.53319 10 2 806 814 0.5906773 0.5969523 0.5945614 2 -6.211323 201.08785 12 3 824 833 0.6046264 0.6109027 0.6098560 2 44.283039 104.76429 14 4 1041 1050 0.7992750 0.8055524 0.8031131 2 70.741906 49.55923 15 2 1051 1059 0.8062498 0.8118241 0.8097335 2 -6.299411 207.17658 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.283760 1.270370 -0.007959727 1.2489490 0.020301687 10.301752 3 1.283996 1.270488 0.009467985 1.9649814 0.026466644 13.308834 4 1.284453 1.270893 0.010364032 7.0483334 0.027192691 11.412489 6 1.288954 1.285553 0.002268607 0.3712669 0.007139221 9.929349 10 1.290212 1.284669 -0.003564916 5.1431004 0.010482650 16.347996 12 1.290365 1.284364 0.010869896 1.3109401 0.027074837 10.094899 14 1.286486 1.278792 -0.007541843 -0.2680599 0.020372288 7.907926 15 1.286093 1.278300 -0.005731137 2.7981612 0.015985543 11.301499 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 376.781 co2l1 = 0.406 co2l0 = 0.028" [1] "co2l0 = -121.76 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "118 out of 187 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "69 out of 1082 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "69 out of 1082 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"