[1] "2025-04-29 20:39:42 MDT" [1] "1402" "140223" "d054" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140223a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 20:39:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.803, ave o2scale2 = 0.731" [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] "63 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.803, ave o2scale2 = 0.731" [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] "63 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:39:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:39:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:40:04 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:40:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 63 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1373 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:40:13 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 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.423 co2off = 374.44 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.55 minutes" [1] "Shortest Cal: 6.02 minutes" [1] "Longest Cal: 9.02 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 4 105 114 0.07660634 0.08286513 0.08043111 2 60.043242 162.1425 3 2 115 124 0.08356050 0.08982043 0.08738602 2 -4.966359 302.9217 5 2 390 399 0.28537535 0.29163449 0.28920056 3 -5.083039 301.1571 6 4 400 409 0.29232986 0.29859306 0.29615899 3 59.961320 159.8278 7 3 410 419 0.29928843 0.30554861 0.30450514 3 37.637945 237.2227 9 4 671 678 0.49547598 0.50034436 0.49860575 2 59.996938 168.3263 10 2 679 685 0.50103973 0.50522075 0.50382977 2 -5.421025 304.7195 13 2 955 964 0.70280787 0.70906719 0.70663309 3 -5.489445 304.0622 14 4 965 974 0.70976285 0.71602433 0.71359005 3 59.922055 166.2398 15 3 975 984 0.71671976 0.72298362 0.72193852 3 37.464016 245.3146 17 4 1247 1256 0.91152202 0.91778139 0.91534747 2 59.901859 164.6615 18 2 1257 1266 0.91847688 0.92473675 0.92230254 2 -5.813039 305.8852 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.238717 1.360125 -0.0003515227 -1.2282376 0.007325076 4.298186 3 1.239018 1.360453 -0.0058464558 0.8476256 0.027237234 3.615079 5 1.241703 1.363204 -0.0086188126 3.1405254 0.022166626 7.948660 6 1.241603 1.363080 0.0091820583 3.1425337 0.024857124 8.135206 7 1.241795 1.363314 0.0027194052 -1.7276562 0.008521928 2.240620 9 1.244834 1.366628 -0.0023213872 0.4974606 0.005827467 7.807064 10 1.245132 1.366920 -0.0086678256 3.9078013 0.014275785 6.546395 13 1.249767 1.371983 -0.0054469399 1.8136780 0.014137338 4.867859 14 1.249626 1.371806 0.0055562999 1.3993755 0.017666979 11.154033 15 1.249657 1.371857 -0.0019983189 0.4383861 0.010336242 1.362540 17 1.252885 1.375319 0.0059511566 1.0854655 0.014984134 3.802909 18 1.253163 1.375592 -0.0080178301 -0.7494425 0.020086196 5.228553 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.903 co2l1 = 0.423 co2l0 = 0.022" [1] "co2l0 = -151.17 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "16 out of 175 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "159 out of 1197 1-min values rejected as stack air" [1] "159 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"