[1] "2025-04-29 17:20:18 MDT" [1] "1212" "121119" "d324" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121119a.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 17:20:23 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.785" [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] "59 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.785" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:20:23 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:20:23 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:20:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:20:48 MDT" [1] "reading in recalculated plot titles" [1] "Removed 59 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1376 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:21:02 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [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 = 0.414 co2off = 371.68 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.62 minutes" [1] "Shortest Cal: 6.01 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 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 6 15 0.005321441 0.01158417 0.009149465 3 -6.282617 200.96829 3 4 16 25 0.012279485 0.01854268 0.016105545 3 68.165109 42.87552 4 3 26 35 0.019237992 0.02550101 0.024455498 3 42.577914 112.10143 7 4 300 309 0.214063657 0.22032639 0.217890368 2 68.280586 43.10675 8 2 310 317 0.222412963 0.22728472 0.225545848 2 -6.322500 203.97146 9 5 318 327 0.227980295 0.23424303 0.233199674 NA 32.319125 91.19507 12 2 583 592 0.422820544 0.42908015 0.426645555 3 -6.607125 201.69381 13 4 593 602 0.429775521 0.43603536 0.433600770 3 68.446547 39.36463 14 3 603 612 0.436730671 0.44298970 0.441946535 3 42.648797 117.16187 17 4 870 879 0.631575231 0.63783796 0.635402912 2 68.514914 42.74595 18 2 880 886 0.638533565 0.64270969 0.641318519 2 -6.580813 199.46082 21 2 1162 1171 0.840369502 0.84663672 0.844199349 3 -6.930898 202.91267 22 4 1172 1181 0.847332176 0.85359511 0.851158854 3 68.790781 42.55953 24 3 1191 1199 0.861250666 0.86751042 0.866583044 3 42.744146 111.17405 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.283256 1.265316 -0.0059036014 0.8432335 0.015895847 4.469577 3 1.283251 1.265304 0.0007810290 0.1822799 0.013251716 1.148489 4 1.283330 1.265372 0.0018792665 -2.9143726 0.010179469 3.866406 7 1.285770 1.267669 0.0011307818 0.2583413 0.005442366 2.846553 8 1.285857 1.267831 -0.0085298260 -0.1917472 0.018617280 2.127219 9 1.285866 1.267888 -0.0232132457 2.2139727 0.016440233 3.337637 12 1.289321 1.271244 -0.0080683492 0.5068130 0.021289276 3.273396 13 1.289338 1.271265 0.0029538764 0.4464325 0.015479997 3.867488 14 1.289520 1.271439 0.0014280961 3.0323348 0.004886062 4.621821 17 1.293320 1.275350 -0.0042655890 -0.5237940 0.013551981 3.804594 18 1.293642 1.275597 -0.0090737703 -3.6949365 0.017604099 6.452535 21 1.299461 1.281739 -0.0105205205 -1.1714245 0.027304376 5.167490 22 1.299549 1.281824 0.0048887554 1.0949287 0.017443275 3.410737 24 1.300363 1.282658 0.0007863904 4.1202259 0.006273507 6.670907 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.062 co2l1 = 0.414 co2l0 = 0.035" [1] "co2l0 = -121.9 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "41 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "104 out of 1168 1-min values rejected as stack air" [1] "9 out of 1055 Line 1 1-min values rejected as stack air" [1] "95 out of 113 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"