[1] "2025-04-30 02:13:08 MDT" [1] "1701" "170107" "d007" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170107a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 69490 63 [1] 69490 [1] 69490 [1] "testing skipping spike filter" [1] 69490 [1] 69490 [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 02:13:11 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.056, ave o2scale2 = 0.859" [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] "37 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.056, ave o2scale2 = 0.859" [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] "39 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:13:11 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:13:11 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:13:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:13:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 39 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1118 377 TRUE" [1] "Removed 377 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:13:22 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 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.964 co2off = 422.73 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.23 minutes" [1] "Average Cal: 7.99 minutes" [1] "Shortest Cal: 4.09 minutes" [1] "Longest Cal: 9.24 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,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 191 198 0.1450358 0.1500709 0.1482885 2 -12.84401 108.4739 3 2 199 207 0.1507901 0.1565060 0.1543662 2 -35.14778 230.2890 6 3 269 273 0.2186567 0.2214985 0.2222109 3 -26.16292 241.5007 7 2 274 283 0.2222125 0.2286189 0.2261265 3 -35.14270 234.8520 8 4 284 293 0.2293364 0.2357395 0.2332426 3 -12.83223 112.1762 9 5 294 303 0.2364540 0.2428708 0.2418020 NA -14.93353 113.0131 11 4 555 563 0.4230129 0.4287005 0.4265653 2 -12.63112 109.5277 12 2 564 572 0.4294119 0.4350950 0.4329592 2 -34.92952 229.2367 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9426527 1.159970 0.002812215 2.1333132 0.005638791 5.901111 3 0.9427621 1.160032 -0.003142682 1.1723989 0.008663851 5.809523 6 0.9436439 1.160439 -0.003943727 8.1635888 0.004275810 14.845162 7 0.9438303 1.160637 -0.002219537 0.4547458 0.006231647 2.204508 8 0.9439790 1.160878 0.001889119 0.2902158 0.009867308 5.096121 9 0.9441182 1.161052 -0.007477204 -6.4998336 0.005435883 9.058917 11 0.9475895 1.164133 0.000756983 -1.6043027 0.005529631 4.691557 12 0.9477092 1.164322 -0.001520373 0.9551220 0.004402845 2.536667 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.48 co2l1 = 0.964 co2l0 = 0.09" [1] "co2l0 = -138.45 co2l1 = 0.202" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "96 out of 190 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "94 out of 615 1-min values rejected as stack air" [1] "94 out of 615 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"