[1] "2025-04-29 23:09:44 MDT" [1] "1502" "150216" "d047" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150216a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86100 63 [1] 86100 [1] 86100 [1] "testing skipping spike filter" [1] 86100 [1] 86100 [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 23:09:48 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.755" [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] "15 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.755" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "18 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:09:48 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:09:48 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:10:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:10:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 18 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1416 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:10:18 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 = -477.8" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.3" [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 = 0.937 co2off = 395.2 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.03 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.05 minutes" [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 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 55 63 0.04062925 0.04689233 0.04460472 2 15.018057 134.8442 3 2 64 73 0.04758782 0.05386175 0.05142438 2 -14.462992 274.4285 7 2 346 355 0.24938238 0.25564126 0.25320739 3 -14.535023 277.3202 8 4 356 365 0.25633721 0.26259954 0.26016565 3 14.951078 127.5177 9 3 366 375 0.26329514 0.26955787 0.26851460 3 3.285797 216.6400 12 4 645 654 0.45828333 0.46456858 0.46212534 2 14.926133 128.0992 13 2 655 664 0.46526594 0.47154398 0.46910185 2 -14.567008 278.3876 14 5 665 674 0.47224074 0.47851212 0.47746700 NA 4.050969 195.6080 16 2 944 953 0.66685582 0.67313889 0.67069930 3 -14.643609 278.6096 17 4 954 963 0.67383631 0.68011117 0.67767052 3 14.856211 133.6599 18 3 964 973 0.68080816 0.68709311 0.68604202 3 3.179906 218.7595 20 4 1240 1249 0.87543056 0.88170148 0.87926251 2 14.787906 150.4009 21 2 1250 1259 0.88239855 0.88868302 0.88623325 2 -14.717898 268.5939 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.191304 1.324183 -0.0007788057 -0.4449295 0.0050326233 4.460583 3 1.191558 1.324486 -0.0015257961 -1.7131103 0.0056572920 5.823156 7 1.192304 1.325305 -0.0000720728 -4.1953894 0.0009056725 10.713529 8 1.192179 1.325086 0.0013152457 0.5714810 0.0051696390 7.901994 9 1.192363 1.325311 0.0056409759 -2.5194555 0.0153808696 4.700544 12 1.192696 1.325700 -0.0009957579 1.3533870 0.0051018026 5.912005 13 1.192613 1.325600 -0.0046302571 0.6958421 0.0121012026 5.098266 14 1.192532 1.325489 0.0018073040 3.4650011 0.0012816310 6.325076 16 1.192081 1.325059 -0.0009828751 2.5865668 0.0026931523 7.797190 17 1.191992 1.324971 0.0006652305 0.9457095 0.0076577850 12.402720 18 1.191914 1.324808 0.0044316050 1.7005514 0.0141491182 2.538415 20 1.188530 1.320809 0.0028413148 -0.2311565 0.0076896411 15.678451 21 1.188539 1.320834 0.0015459017 0.2888367 0.0099840798 9.284510 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 390.283 co2l1 = 0.936 co2l0 = -0.009" [1] "co2l0 = -144.64 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "100 out of 355 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "255 out of 1229 1-min values rejected as stack air" [1] "239 out of 1156 Line 1 1-min values rejected as stack air" [1] "16 out of 73 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"