[1] "2025-04-29 22:06:47 MDT" [1] "1408" "140924" "d267" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140924a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 22:06:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.743" [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] "48 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.743" [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] "48 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:06:52 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:06:52 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:07:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:07:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 48 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1388 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:07:23 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 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.478 co2off = 395.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.95 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 56 64 0.04090683 0.04647046 0.04438409 2 29.611295 141.7559 3 2 65 74 0.04716586 0.05342685 0.05099243 2 -28.248961 282.8297 5 2 354 363 0.24889120 0.25515049 0.25271628 3 -28.493766 283.6078 6 4 364 373 0.25584606 0.26210911 0.25967373 3 29.361234 133.6731 7 5 374 383 0.26280446 0.26908345 0.26803406 NA 7.342094 191.9791 8 3 384 393 0.26978469 0.27604682 0.27500378 3 9.785422 217.4374 10 4 649 658 0.45760761 0.46386889 0.46143273 2 29.279430 139.5582 11 2 659 668 0.46456597 0.47082870 0.46839223 2 -28.585422 289.2813 13 2 940 949 0.66629714 0.67255671 0.67012282 3 -28.803313 280.8021 14 4 950 959 0.67325353 0.67951522 0.67708128 3 29.004969 136.1041 15 3 960 969 0.68021073 0.68647054 0.68542726 3 9.424609 215.3177 17 4 1214 1223 0.87504039 0.88129991 0.87886549 2 28.875422 132.5116 18 2 1224 1233 0.88199537 0.88825472 0.88582054 2 -28.985227 278.8785 19 5 1234 1243 0.88895029 0.89520969 0.89416662 NA 6.758469 201.1728 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.213425 1.346494 5.380126e-03 1.6363404 0.015080026 7.631269 3 1.213367 1.346413 -5.949315e-03 0.7091469 0.016259199 3.781587 5 1.212592 1.345486 5.645688e-05 0.5681492 0.004213174 2.979314 6 1.212388 1.345335 6.373039e-03 -1.0790895 0.016376286 10.259085 7 1.212278 1.345128 -6.150851e-03 -1.3672308 0.004375223 2.477132 8 1.212441 1.345312 -1.815726e-03 1.9137493 0.007228706 4.026921 10 1.213238 1.346162 2.707212e-03 2.0701480 0.007731937 7.185119 11 1.213347 1.346285 -5.792164e-03 2.3434388 0.019533761 6.587999 13 1.213543 1.346486 -1.540950e-03 -1.1263124 0.006944213 3.032410 14 1.213383 1.346323 1.243796e-03 -0.1180566 0.007844115 1.806962 15 1.213450 1.346428 -8.574279e-04 -3.9423091 0.005922278 5.219047 17 1.211742 1.344214 1.078632e-03 -2.1062545 0.005648636 6.549214 18 1.211647 1.344140 -6.154249e-03 1.1262087 0.018253789 5.750226 19 1.211600 1.344041 -1.591628e-02 -6.0624389 0.011269514 8.550535 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 390.298 co2l1 = 0.477 co2l0 = 0.081" [1] "co2l0 = -143.48 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "12 out of 37 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "25 out of 1197 1-min values rejected as stack air" [1] "25 out of 1197 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"