[1] "2025-04-29 17:26:18 MDT" [1] "1213" "121204" "d339" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121204a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 73483 63 [1] 73483 [1] 73483 [1] "testing skipping spike filter" [1] 73483 [1] 73483 [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 17:26:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.788" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 3 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 3 MR FC 2 jog(s) with SP SD > 1000" [1] "272 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.788" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 3 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 3 RC FC 2 jog(s) with SP SD > 1000" [1] "271 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:26:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:26:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:26:29 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:26:30 MDT" [1] "reading in recalculated plot titles" [1] "Removed 272 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 320 manually filtered row(s) from a calbreak period" [1] "Removed 144 row(s) with low FLSP" [1] "TEMP: 476 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:26:35 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -449.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.381 co2off = 363.36 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.53 minutes" [1] "Average Cal: 7.69 minutes" [1] "Shortest Cal: 1.02 minutes" [1] "Longest Cal: 28.04 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 3 [3,] 5 5 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 23 32 0.3645873 0.3708461 0.3684122 2 72.593531 35.24577 3 2 33 41 0.3715417 0.3771056 0.3750194 2 -9.516455 211.72489 4 4 42 45 0.5063836 0.5126425 0.5122948 1 72.513750 29.10663 5 5 46 53 0.5147292 0.5195975 0.5192498 NA 34.642063 99.10812 8 2 134 137 0.6888719 0.6909936 0.6906399 1 -7.659500 201.75255 12 5 327 352 0.8506782 0.8701513 0.8635443 NA 34.070753 96.62141 15 4 376 384 0.8872177 0.8927813 0.8906952 2 72.532938 41.35535 16 2 385 392 0.8955635 0.9004570 0.8987050 2 -8.926708 204.86945 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.285428 1.269914 0.015118219 2.348274e+00 0.03763415 10.5072612 3 1.285939 1.270413 0.017935661 4.403521e-01 0.03992995 16.3369717 4 1.284262 1.268701 0.078395473 7.616414e-15 0.05550788 0.0000000 5 1.284825 1.269274 -0.067035619 -1.039186e+00 0.04746454 0.7358873 8 1.284101 1.268559 -0.002944665 -2.584601e+00 0.00212132 1.8619326 12 1.282724 1.266789 -0.013302614 8.010604e-02 0.07491685 2.1048273 15 1.283457 1.267458 -0.013543798 1.329111e+00 0.02933195 3.3260806 16 1.283447 1.267423 -0.036552176 1.200375e+00 0.06966890 3.1699286 [1] "Broke calibration interpolation before 0 and after 0.333333333333333" [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.676 co2l1 = 0.379 co2l0 = 0" [1] "co2l0 = -120.16 co2l1 = 0.21" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 148 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "110 out of 333 1-min values rejected as stack air" [1] "70 out of 293 Line 1 1-min values rejected as stack air" [1] "40 out of 40 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"