[1] "2025-04-29 23:34:40 MDT" [1] "1503" "150403" "d093" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150403a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 73900 63 [1] 73900 [1] 73900 [1] "testing skipping spike filter" [1] 73900 [1] 73900 [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 23:34:43 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [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] "222 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [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] "222 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:34:44 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:34:44 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:35:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:35:03 MDT" [1] "reading in recalculated plot titles" [1] "Removed 223 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1008 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:35:07 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -478" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.953 co2off = 421.48 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.1 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [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 5 [3,] 6 7 [4,] 8 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 160 167 0.1164896 0.1227512 0.1200852 2 -3.844312 118.8893 3 2 168 177 0.1234465 0.1297060 0.1272718 2 -32.870406 260.9108 6 2 428 435 0.3252048 0.3314643 0.3293775 3 -32.725221 259.1498 7 4 436 444 0.3321598 0.3384190 0.3363328 3 -3.708373 123.8830 8 3 445 453 0.3391146 0.3453740 0.3444468 3 -15.199085 210.4849 10 4 695 700 0.5359804 0.5401539 0.5391106 2 -3.679348 114.2050 11 2 701 709 0.5415451 0.5471088 0.5450222 2 -32.675982 265.5944 13 2 893 900 0.7439746 0.7488468 0.7471082 3 -32.602542 270.5750 14 4 901 907 0.7495421 0.7551064 0.7531588 3 -3.611500 122.3165 15 5 908 917 0.7564972 0.7627603 0.7617170 NA -14.522375 185.2800 16 3 918 922 0.7641506 0.7676285 0.7711057 3 -15.098443 214.0018 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.160372 1.287798 1.832093e-03 -0.43064583 0.005740209 2.6021024 3 1.161269 1.288873 -1.988240e-03 1.51330176 0.005499188 6.5425813 6 1.170912 1.300540 8.606433e-04 2.76164418 0.002168253 6.6782197 7 1.171143 1.300707 2.948774e-05 0.87603237 0.004104753 2.6890985 8 1.171450 1.300950 2.248645e-03 5.47336550 0.007653017 8.8600296 10 1.178049 1.308572 -1.118095e-03 -5.91657610 0.001955184 9.8236385 11 1.178456 1.308957 1.383350e-04 2.17146177 0.005421158 5.3421024 13 1.183951 1.314981 -8.843728e-04 3.82414273 0.001669425 9.0817212 14 1.183741 1.314810 -1.024321e-04 -2.14393460 0.003290908 6.0210386 15 1.183311 1.314379 -3.494031e-03 1.09664264 0.002474874 1.9583986 16 1.183355 1.314336 1.630813e-03 -0.05096429 0.001637377 0.2496083 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 407.774 co2l1 = 0.952 co2l0 = 0.002" [1] "co2l0 = -140.3 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "82 out of 109 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "27 out of 864 1-min values rejected as stack air" [1] "27 out of 864 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"