[1] "2025-04-30 00:05:16 MDT" [1] "1505" "150529" "d149" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150529a.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] "2025-04-30 00:05:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.857, ave o2scale2 = 0.771" [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] "87 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.857, ave o2scale2 = 0.771" [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] "87 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:05:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:05:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:05:37 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:05:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 87 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1349 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:05:41 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 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 = 1.017 co2off = 474.83 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.75 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 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,] 6 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 93 102 0.06507627 0.07133573 0.06890152 3 -88.64899 476.1263 3 4 103 112 0.07203128 0.07829277 0.07585815 3 -67.46450 363.1812 4 3 113 122 0.07898825 0.08525466 0.08420950 3 -80.11474 467.2513 6 4 384 393 0.27376736 0.28002674 0.27759270 2 -67.44120 366.0501 7 2 394 403 0.28072297 0.28698241 0.28454808 2 -88.62865 478.5569 10 2 662 670 0.48247590 0.48873955 0.48635317 3 -88.59490 475.2545 11 4 671 680 0.48943510 0.49569795 0.49326190 3 -67.41746 361.3344 12 3 681 690 0.49639355 0.50265278 0.50160961 3 -80.07588 465.7279 15 4 944 953 0.69116088 0.69742017 0.69498604 2 -67.42258 359.4237 16 2 954 963 0.69811574 0.70437503 0.70194068 2 -88.61490 474.7481 20 2 1225 1234 0.89982755 0.90608689 0.90365257 2 -88.55013 471.1487 21 4 1235 1243 0.90678223 0.91234606 0.91025971 2 -67.36731 357.4610 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.169442 1.298564 0.0022874956 3.2994251 0.007312037 8.7915571 3 1.169295 1.298380 0.0009967573 0.7009422 0.006625253 3.2461796 4 1.169391 1.298488 -0.0003976539 -1.0146364 0.004371611 1.3363101 6 1.170811 1.300079 0.0002705432 2.2923660 0.006046855 6.4583567 7 1.170732 1.299990 -0.0005550342 1.6353563 0.003054187 5.2447318 10 1.168647 1.297807 0.0003367412 1.8560802 0.003567289 5.3214250 11 1.168477 1.297522 0.0031853523 0.6273030 0.008363461 2.4611292 12 1.168366 1.297421 0.0034435878 0.1494684 0.008682998 0.6385805 15 1.163864 1.292627 0.0013566481 0.4350652 0.004413574 2.3415660 16 1.163696 1.292436 -0.0014642402 3.1095169 0.004372440 8.0695687 20 1.165791 1.294666 0.0026426732 2.3564709 0.006870407 5.9229186 21 1.165873 1.294812 0.0025031987 -0.2996841 0.006217101 2.0094448 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 474.654 co2l1 = 1.016 co2l0 = 1.699" [1] "co2l0 = -197.08 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "79 out of 470 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "391 out of 1143 1-min values rejected as stack air" [1] "380 out of 1039 Line 1 1-min values rejected as stack air" [1] "11 out of 104 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"