[1] "2025-04-29 23:18:24 MDT" [1] "1502" "150306" "d065" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150306a.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 23:18:28 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.762" [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] "62 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.762" [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] "62 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:18:29 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:18:29 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:18:50 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:18:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 62 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 23:18:58 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 = -477.9" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.4" [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 = 0.95 co2off = 394.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.4 minutes" [1] "Shortest Cal: 1 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,] 9 11 [5,] 12 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 216 225 0.1568906 0.1631503 0.1607159 2 -1.386063 120.4838 3 2 226 235 0.1638458 0.1701088 0.1676712 2 -30.494500 269.5641 5 2 516 525 0.3655522 0.3718154 0.3693814 3 -30.447922 267.7129 6 4 526 535 0.3725110 0.3787737 0.3763397 3 -1.355055 122.6261 7 3 536 545 0.3794690 0.3857326 0.3846892 3 -12.871414 213.5883 9 4 815 824 0.5742719 0.5805306 0.5780966 2 -1.369969 121.4678 10 2 825 834 0.5812260 0.5874858 0.5850515 2 -30.457977 265.6754 11 5 835 844 0.5881811 0.5944411 0.5933975 NA -12.138563 182.0714 13 2 1079 1088 0.7829711 0.7892345 0.7867985 3 -30.510070 265.0921 14 4 1089 1098 0.7899298 0.7961897 0.7937552 3 -1.419078 120.8061 15 3 1099 1108 0.7968850 0.8031444 0.8021012 3 -12.937000 212.8637 17 4 1362 1371 0.9916748 0.9979345 0.9955003 1 -1.403477 122.4081 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.181404 1.312148 -0.0018377836 1.04031354 0.004671580 3.276836 3 1.181485 1.312248 -0.0014163491 0.13026656 0.005330589 2.197292 5 1.182636 1.313546 -0.0005868966 0.38112048 0.004371906 2.544881 6 1.182443 1.313335 0.0022979148 -0.05255505 0.008119053 1.072470 7 1.182548 1.313475 0.0013344375 2.73957912 0.004092804 5.821240 9 1.183451 1.314462 0.0009122994 -0.10311118 0.004986589 3.045076 10 1.183602 1.314637 -0.0026200777 0.54646675 0.007860455 4.256392 11 1.183455 1.314462 -0.0021210231 0.72793010 0.001502602 2.808028 13 1.182569 1.313468 -0.0017712128 -1.13306919 0.006319474 3.364643 14 1.182396 1.313281 -0.0002570201 0.10664560 0.002367410 1.002806 15 1.182339 1.313213 0.0023727235 -2.29179192 0.007139006 3.143263 17 1.181273 1.311973 -0.0012458921 0.96434166 0.004131750 3.105491 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 405.556 co2l1 = 0.949 co2l0 = 0.005" [1] "co2l0 = -140.32 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "17 out of 120 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "103 out of 1204 1-min values rejected as stack air" [1] "103 out of 1204 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"