[1] "2025-04-29 20:56:37 MDT" [1] "1403" "140328" "d087" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140328a.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 20:56:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.738" [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] "7 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.738" [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] "7 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:56:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:56:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:57:00 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:57:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 7 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1429 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:57:06 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.42 co2off = 370.12 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 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,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 40 49 0.02804395 0.03430324 0.03186907 3 15.93329 274.9199 3 4 50 59 0.03499878 0.04125810 0.03882368 3 81.83133 129.7986 4 3 60 69 0.04195336 0.04821296 0.04716953 3 59.24037 206.4510 7 4 333 342 0.23672020 0.24298284 0.24054803 2 81.56335 130.2162 8 2 343 352 0.24367833 0.24993843 0.24750400 2 15.88059 275.9490 10 2 633 642 0.44542717 0.45168637 0.44925252 3 15.77240 278.1873 11 4 643 652 0.45238197 0.45864132 0.45620737 3 81.49738 131.7566 12 5 653 662 0.45933681 0.46559635 0.46455291 NA 56.13416 183.9746 13 3 663 672 0.46629216 0.47255130 0.47150820 3 58.95786 211.5750 15 4 933 942 0.65410556 0.66036531 0.65793113 2 81.43045 129.4763 16 2 943 952 0.66106071 0.66732052 0.66488607 2 15.61709 276.0028 18 2 1233 1242 0.86277815 0.86904051 0.86660400 3 15.52791 275.9764 19 4 1243 1252 0.86973727 0.87599638 0.87356219 3 81.30985 130.8450 20 3 1253 1262 0.87669178 0.88295139 0.88190804 3 58.71830 214.0926 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.231410 1.352796 -0.0055717995 0.76246326 0.014693253 4.262716 3 1.231328 1.352709 0.0067882803 2.07077005 0.026151425 5.645957 4 1.231524 1.352921 -0.0017613185 1.81927293 0.006191642 2.695988 7 1.230269 1.351552 0.0060050337 1.82165081 0.015699854 5.202843 8 1.230378 1.351686 -0.0113727954 1.64328809 0.028523878 6.176926 10 1.232879 1.354449 -0.0066818724 0.42827391 0.017686378 3.344694 11 1.232812 1.354383 0.0089273748 0.47181683 0.028781067 5.573145 12 1.232938 1.354537 0.0198993596 -3.87119131 0.014097941 5.508908 13 1.233089 1.354727 0.0018602669 -0.27769604 0.005838101 2.541186 15 1.236628 1.358556 -0.0021411797 1.55491737 0.007265205 4.851899 16 1.236802 1.358757 -0.0070958721 0.37722339 0.021185801 4.776011 18 1.237845 1.359908 0.0013131076 1.05553249 0.003573370 3.694847 19 1.237831 1.359885 0.0008757528 0.96475825 0.009182605 3.924604 20 1.237901 1.359972 -0.0048198476 -0.09427459 0.014407279 0.355638 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.036 co2l1 = 0.42 co2l0 = -0.341" [1] "co2l0 = -142.14 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "71 out of 170 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "99 out of 1245 1-min values rejected as stack air" [1] "82 out of 1226 Line 1 1-min values rejected as stack air" [1] "17 out of 19 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"