[1] "2025-04-30 02:59:28 MDT" [1] "1704" "170521" "d141" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170521a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 02:59:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.875, ave o2scale2 = 0.906" [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] "38 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.875, ave o2scale2 = 0.906" [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] "40 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:59:33 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:59:33 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:59:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:59:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 40 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1364 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:59:56 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 = 4.426 co2off = 372.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 8.2 minutes" [1] "Shortest Cal: 8.19 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 5 13 0.004838744 0.01053084 0.008396317 2 8.746348 166.3472 3 2 14 22 0.011242506 0.01694459 0.014810069 2 5.995214 337.8019 5 2 294 302 0.212765625 0.21845663 0.216322255 3 5.994580 335.2682 6 4 303 311 0.219168374 0.22487179 0.222733850 3 8.768661 169.8592 7 3 312 320 0.225583478 0.23127381 0.230562558 3 5.247732 314.6875 9 4 583 588 0.420685069 0.42638423 0.425317050 2 8.727391 175.1137 10 2 589 597 0.427095660 0.43279456 0.430654613 2 5.990304 335.5183 13 2 869 877 0.628671325 0.63437185 0.632234131 3 6.003321 334.0408 14 4 878 886 0.635083623 0.64077717 0.638641890 3 8.753402 171.0680 15 3 887 895 0.641489034 0.64718990 0.646478540 3 5.197759 319.3466 17 4 1153 1161 0.836652951 0.84235362 0.840212297 2 8.769330 167.1689 18 2 1162 1170 0.843065365 0.84875677 0.846622417 2 6.040643 336.5340 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.132508 1.095856 8.059592e-05 0.7050456 0.0011103544 2.468692 3 1.132511 1.095775 1.372579e-04 2.9311798 0.0023087969 7.476173 5 1.136370 1.098968 3.074230e-03 2.2505342 0.0069229121 6.017193 6 1.136898 1.099409 4.952052e-03 1.6680279 0.0113243410 5.098800 7 1.137583 1.100248 1.327251e-03 1.0232583 0.0033246073 2.002484 9 1.143961 1.105442 8.237066e-04 0.1675627 0.0016396575 0.503479 10 1.144276 1.105694 -2.777127e-04 2.6411530 0.0011611263 6.142500 13 1.147736 1.108446 2.933111e-03 0.9107288 0.0102533295 4.221853 14 1.147876 1.108496 9.865730e-04 1.1617187 0.0032842461 4.512503 15 1.147880 1.108612 -2.117688e-03 -0.3223293 0.0047968399 0.816346 17 1.146608 1.106235 9.715628e-04 0.3422186 0.0022522310 7.369724 18 1.146722 1.106244 -9.586778e-05 3.7534396 0.0005238011 8.585376 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.173 co2l1 = 4.441 co2l0 = -2.584" [1] "co2l0 = -162.41 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "57 out of 238 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "181 out of 1198 1-min values rejected as stack air" [1] "181 out of 1198 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"