[1] "2025-04-30 00:02:38 MDT" [1] "1505" "150524" "d144" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150524a.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 00:02:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.781" [1] "Removing 2 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] "61 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.781" [1] "Removing 3 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] "63 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:02:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:02:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:03:00 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:03:01 MDT" [1] "reading in recalculated plot titles" [1] "Removed 63 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1372 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:03:03 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 1.017 co2off = 470.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.75 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.05 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 63 67 0.05657057 0.06074693 0.06005146 3 -88.73033 490.5519 3 4 68 76 0.06283964 0.06911056 0.06702326 3 -67.53862 365.5233 4 3 77 85 0.06980613 0.07537616 0.07467700 3 -80.21801 465.3200 8 4 328 337 0.26460651 0.27086629 0.26843186 2 -67.49287 364.9655 9 2 338 347 0.27156169 0.27782115 0.27538689 2 -88.69341 480.2401 10 5 348 357 0.27851675 0.28477636 0.28373310 NA -79.60341 443.4273 12 2 623 632 0.47332784 0.47959245 0.47715425 3 -88.63600 475.2483 13 4 633 642 0.48028900 0.48655208 0.48411580 3 -67.42870 363.4653 14 3 643 652 0.48724769 0.49351458 0.49247148 3 -80.09718 468.7262 17 4 916 925 0.68209575 0.68835541 0.68592080 2 -67.42876 363.7839 18 2 926 935 0.68905093 0.69531019 0.69287601 2 -88.62023 475.7288 21 2 1216 1225 0.89083513 0.89709774 0.89466377 3 -88.56479 480.3722 22 4 1226 1235 0.89779389 0.90405556 0.90162105 3 -67.37166 367.0917 23 5 1236 1245 0.90475116 0.91101936 0.90997304 NA -79.44228 450.5436 24 3 1246 1255 0.91171641 0.91799913 0.91695322 3 -80.03003 467.0725 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.144387 1.271501 4.056775e-03 23.71149553 4.081845e-03 23.7445934 3 1.144062 1.271481 -2.162641e-05 2.62921523 5.172487e-03 6.7524060 4 1.144256 1.271626 -1.048684e-03 -0.39564896 2.406975e-03 1.1213770 8 1.147635 1.276074 2.776113e-03 1.96907430 8.137658e-03 5.3851881 9 1.147860 1.276321 -1.682036e-03 1.10173664 5.381122e-03 3.7209752 10 1.147965 1.276449 6.240639e-05 -0.11081233 4.419417e-05 0.4871981 12 1.151425 1.280533 1.735145e-03 0.58957684 4.346720e-03 5.8500608 13 1.151416 1.280556 1.988046e-03 2.31203515 7.299969e-03 7.0736258 14 1.151519 1.280656 2.342622e-03 1.22106346 6.231888e-03 1.7844982 17 1.154777 1.284345 1.186278e-03 -0.05085285 3.267883e-03 3.0688429 18 1.155006 1.284620 -6.478343e-04 3.95073636 3.117983e-03 12.5255048 21 1.158450 1.288373 2.308379e-03 1.13133863 5.683224e-03 3.1400468 22 1.158573 1.288517 1.815380e-03 0.93506235 7.238595e-03 3.1108181 23 1.158884 1.288892 -3.666722e-03 -3.70299479 2.607456e-03 5.8012125 24 1.159187 1.289209 2.816968e-03 0.10365068 7.661141e-03 2.0007596 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 474.646 co2l1 = 1.015 co2l0 = 1.532" [1] "co2l0 = -197.33 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "84 out of 385 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "301 out of 1162 1-min values rejected as stack air" [1] "212 out of 744 Line 1 1-min values rejected as stack air" [1] "89 out of 418 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"