[1] "2025-04-29 23:42:23 MDT" [1] "1504" "150419" "d109" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150419a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85300 63 [1] 85300 [1] 85300 [1] "testing skipping spike filter" [1] 85300 [1] 85300 [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 23:42:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.782" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "75 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.782" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "75 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:42:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:42:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:42:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:42:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 75 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1344 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:42:47 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" [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 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 = 0.952 co2off = 397.33 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 8.19 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.01 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,] 12 13 [6,] 14 16 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.001261748 0.006826389 0.004740013 2 -4.273536 121.2457 2 2 10 17 0.008912789 0.013781250 0.012042839 2 -33.301073 270.3515 5 2 259 267 0.208357118 0.213921296 0.211834631 3 -33.324902 270.1068 6 4 268 275 0.215312442 0.220180874 0.218441946 3 -4.328594 114.0496 8 3 285 293 0.227140046 0.232703762 0.232008256 3 -15.834804 210.3387 11 4 556 565 0.417100752 0.423360098 0.420926154 2 -4.371414 120.4809 12 2 566 575 0.424055584 0.430315133 0.427881105 2 -33.397555 267.5806 14 3 714 722 0.542361053 0.547924769 0.547229244 3 -15.854214 209.7648 15 2 723 732 0.548620370 0.554879716 0.552445522 3 -33.400086 269.6948 16 4 733 742 0.555575839 0.561835069 0.559400919 3 -4.386508 123.5153 17 5 743 752 0.562530469 0.568790509 0.567747237 NA -15.980750 182.6018 19 4 998 1007 0.750366898 0.756626157 0.754191880 2 -4.355953 123.0844 20 2 1008 1013 0.760103038 0.763580498 0.762537420 2 -33.366234 260.0421 24 2 1288 1296 0.959097598 0.965356510 0.963270366 3 -33.332452 265.3533 25 4 1297 1306 0.966052083 0.972311487 0.969877456 3 -4.319156 121.6388 26 3 1307 1315 0.973702575 0.979266262 0.978570660 3 -15.790964 212.5541 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.157716 1.284682 -1.707492e-03 -0.06291668 0.0038454615 1.2365433 2 1.157341 1.284231 -4.511707e-04 -0.23335803 0.0020442055 2.6129945 5 1.153861 1.280721 -2.391193e-03 0.18774215 0.0055337338 3.7605029 6 1.153017 1.279668 -6.721756e-04 2.11129950 0.0018327532 4.5803007 8 1.152281 1.278808 4.691940e-03 -5.89713647 0.0105703514 6.0958537 11 1.149814 1.276161 -1.270466e-04 -0.16718328 0.0010553528 0.8072541 12 1.149830 1.276191 -2.972625e-03 0.58632843 0.0078903222 2.0009364 14 1.150156 1.276777 -5.371589e-04 5.87064098 0.0024170771 6.4160418 15 1.150396 1.276999 -1.532792e-03 1.21432664 0.0040150300 3.8134803 16 1.150263 1.276894 -8.804414e-04 -0.42409041 0.0051482961 2.3965885 17 1.150321 1.276965 1.996755e-03 0.01854067 0.0014142136 0.8287740 19 1.152694 1.279632 -1.166456e-03 -0.35310127 0.0030603582 1.6252649 20 1.153078 1.280047 8.109925e-05 5.56862086 0.0005691162 10.5711560 24 1.157290 1.284833 2.395929e-03 1.46980416 0.0060703618 5.3266590 25 1.157116 1.284589 -1.901898e-04 -0.62224603 0.0068354381 1.9890686 26 1.157661 1.285283 3.000154e-03 0.87998372 0.0067886487 0.8816390 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.371 co2l1 = 0.952 co2l0 = 0.011" [1] "co2l0 = -140 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "42 out of 276 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "234 out of 1126 1-min values rejected as stack air" [1] "198 out of 844 Line 1 1-min values rejected as stack air" [1] "36 out of 282 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"