[1] "2025-04-30 03:14:41 MDT" [1] "1706" "170805" "d217" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170805a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 81886 63 [1] 81886 [1] 81886 [1] "testing skipping spike filter" [1] 81886 [1] 81886 [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 03:14:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.866, ave o2scale2 = 0.935" [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] "144 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.866, ave o2scale2 = 0.935" [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] "145 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:14:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:14:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:14:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:14:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 145 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1216 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:15:02 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.503 co2off = 425.19 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 7.42 minutes" [1] "Shortest Cal: 1.14 minutes" [1] "Longest Cal: 10.28 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Removed 1 calibration row(s) with high SL" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 6 6 [4,] 7 9 [5,] 10 10 [6,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 147 153 0.1410479 0.1453265 0.1438995 2 -2.216213 162.8897 1.146239 4 3 154 162 0.1460383 0.1517286 0.1510174 2 -5.748714 314.6666 1.146305 6 4 405 412 0.3415289 0.3472575 0.3451115 2 -2.302084 183.5916 1.149061 7 2 413 421 0.3479720 0.3536912 0.3515444 2 -5.045830 325.8200 1.149164 8 5 422 429 0.3544126 0.3601072 0.3597515 NA -3.374500 226.0985 1.149245 10 2 685 693 0.5497871 0.5554956 0.5533535 1 -5.019786 332.5066 1.154820 12 3 701 710 0.5745759 0.5816968 0.5805131 3 -5.798461 316.0722 1.155561 13 2 711 719 0.5824889 0.5896298 0.5871388 3 -4.986026 353.4439 1.156257 14 4 720 728 0.5904217 0.5975623 0.5949544 3 -2.289599 165.1630 1.156540 18 2 955 960 0.7893362 0.7932962 0.7921082 1 -5.032547 332.8797 1.164747 20 2 1204 1212 0.9909759 0.9966845 0.9945428 1 -4.949536 339.4638 1.174000 jfcv2 co2slp o2slp co2sd o2sd 3 1.060939 -0.0001095392 0.28795305 0.0003143694 16.241660 4 1.060921 0.0004488960 -3.67338352 0.0022111393 4.132693 6 1.063653 -0.0020842889 5.83691092 0.0052469240 19.255928 7 1.063614 0.0001196390 1.71132287 0.0014797744 7.842100 8 1.063719 -0.0285435472 -13.03085652 0.0206828733 9.439571 10 1.068775 -0.0004512772 0.61723658 0.0011896128 10.642023 12 1.069672 0.0013168763 -1.36617727 0.0040215571 2.010593 13 1.070247 -0.0009923893 0.04620201 0.0028978152 12.854223 14 1.070601 -0.0048052418 0.29554917 0.0142254518 6.209127 18 1.078255 -0.0003452527 4.74905177 0.0010549672 7.163674 20 1.086896 0.0008969344 3.28385153 0.0024197691 20.822969 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 419.239 co2l1 = 4.476 co2l0 = 0.481" [1] "co2l0 = -159.85 co2l1 = 0.211" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "116 out of 345 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "229 out of 1038 1-min values rejected as stack air" [1] "229 out of 1038 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"