[1] "2025-04-30 01:04:34 MDT" [1] "1601" "160118" "d018" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160118a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85200 63 [1] 85200 [1] 85200 [1] "testing skipping spike filter" [1] 85200 [1] 85200 [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 01:04:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.884, ave o2scale2 = 0.783" [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] "4 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.884, ave o2scale2 = 0.783" [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] "4 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:04:39 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:04:39 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:04:56 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:04:57 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1415 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:05:00 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.949 co2off = 395.29 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.14 minutes" [1] "Average Cal: 9.12 minutes" [1] "Shortest Cal: 9.02 minutes" [1] "Longest Cal: 9.14 minutes" [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 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 10 0.000837934 0.007099537 0.004663462 2 1.915109 381.7878 2 5 11 20 0.007799855 0.014105324 0.013053335 NA -10.923156 454.1304 3 3 21 30 0.014806800 0.021113889 0.020062789 2 -11.644945 482.5376 5 4 288 297 0.202392361 0.208740654 0.206270674 2 1.979305 382.4828 6 2 298 307 0.209445689 0.215791667 0.213325181 2 -20.731195 493.5436 8 2 583 592 0.411120891 0.417470573 0.415000781 3 -20.716750 490.7601 9 4 593 602 0.418175926 0.424520833 0.422053288 3 1.988953 377.5053 10 3 603 612 0.425226215 0.431575289 0.430516775 3 -11.581484 481.4594 12 4 878 887 0.619921586 0.626267824 0.623800040 2 2.029938 380.0271 13 2 888 897 0.626973322 0.633318287 0.630850297 2 -20.674750 497.4191 15 2 1173 1182 0.828719416 0.835064786 0.832597508 3 -20.682164 495.1898 16 4 1183 1192 0.835769850 0.842114902 0.839647197 3 2.020320 382.4147 17 3 1193 1202 0.842820284 0.849163166 0.848105917 3 -11.539750 490.8854 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.124165 1.269212 0.0027964204 0.3169107 0.007250904 3.9202822 2 1.124438 1.269511 -0.0048833759 -0.9135016 0.003491340 1.2216459 3 1.124578 1.269679 -0.0004047170 -0.2152563 0.002863805 0.3870340 5 1.127365 1.272830 -0.0021349959 -0.1210085 0.006517442 3.5600320 6 1.127506 1.272977 -0.0025509819 0.4522629 0.006827387 3.3089306 8 1.131448 1.277438 -0.0026360359 -1.3854207 0.006868828 5.8499296 9 1.131598 1.277600 0.0008339458 -1.6791687 0.002582943 7.3509843 10 1.131906 1.277942 0.0018475303 0.5870451 0.005113418 0.8294193 12 1.134132 1.280488 -0.0016878224 1.1383394 0.006846206 7.5319552 13 1.134268 1.280671 -0.0011961784 1.1138755 0.004265466 5.2003136 15 1.135416 1.281789 -0.0003202383 -0.3589741 0.003036228 4.7757372 16 1.135393 1.281793 -0.0003700807 0.5701669 0.002346739 1.7406588 17 1.135394 1.281879 0.0028341956 4.5402860 0.007576028 6.3362477 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.296 co2l1 = 0.948 co2l0 = -0.001" [1] "co2l0 = -201.12 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "19 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "126 out of 1245 1-min values rejected as stack air" [1] "126 out of 1245 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"