[1] "2025-04-29 20:08:37 MDT" [1] "1401" "140102" "d002" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140102a.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 20:08:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.733" [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] "153 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.733" [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] "153 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:08:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:08:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:09:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:09:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 153 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1283 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:09:16 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.422 co2off = 365.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.66 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 53 62 0.03909873 0.04535836 0.04292418 2 63.341453 158.7695 3 2 63 72 0.04605376 0.05231667 0.04988113 2 -2.802047 303.0840 4 5 73 82 0.05301195 0.05927092 0.05822784 NA 38.038500 227.5167 6 2 348 357 0.24777888 0.25403822 0.25160416 3 -2.150734 302.5911 7 4 358 366 0.25542940 0.26099664 0.25890823 3 63.178071 162.6225 8 3 367 375 0.26169216 0.26727659 0.26658105 3 40.757080 240.4155 10 4 621 630 0.45650017 0.46276366 0.46032794 2 63.074227 157.0313 11 2 631 636 0.46345909 0.46763180 0.46624075 2 -2.262941 330.0412 14 4 864 868 0.67493345 0.67771539 0.67701978 2 62.887458 151.2375 16 3 875 883 0.68606134 0.69162506 0.69092952 2 40.541804 244.1282 18 4 1110 1119 0.87386921 0.88012847 0.87769429 2 62.693789 163.7535 19 2 1120 1129 0.88082399 0.88708333 0.88464918 2 -2.635828 296.2835 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.236026 1.359107 0.0054750815 2.0320284 0.019648466 7.763519 3 1.236283 1.359377 -0.0029147055 1.1317200 0.010593480 4.408005 4 1.236223 1.359285 0.0052421368 -0.4912447 0.003712311 1.498764 6 1.234339 1.356998 0.0032150818 3.0869488 0.012868052 8.057064 7 1.233966 1.356703 0.0070209946 2.9520250 0.016052584 7.677205 8 1.233895 1.356569 -0.0056848761 -9.5344534 0.013565318 9.674263 10 1.237253 1.359843 0.0104067966 6.8606141 0.028002071 22.462432 11 1.237485 1.360080 0.0123805619 3.2326153 0.022813727 18.252871 14 1.245183 1.368001 0.0094217754 11.9280894 0.009480517 12.328700 16 1.246212 1.369077 -0.0090198090 -6.8201097 0.022356936 7.609619 18 1.251966 1.375761 0.0006248365 3.1405772 0.008093892 8.194856 19 1.252258 1.376034 0.0154347238 0.4650744 0.040122257 10.115197 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.776 co2l1 = 0.42 co2l0 = -0.021" [1] "co2l0 = -147.21 co2l1 = 0.212" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1115 1-min values rejected as stack air" [1] "0 out of 1115 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"