[1] "2025-04-29 22:22:41 MDT" [1] "1410" "141107" "d311" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141107a.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 22:22:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.85, ave o2scale2 = 0.765" [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] "26 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.85, ave o2scale2 = 0.765" [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] "28 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:22:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:22:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:23:07 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:23:09 MDT" [1] "reading in recalculated plot titles" [1] "Removed 28 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1408 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:23:15 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 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.946 co2off = 406.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.87 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.03 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 51 59 0.03939485 0.04496221 0.04287595 2 3.404268 382.5437 3 2 60 69 0.04565752 0.05192141 0.04948655 2 -25.842609 525.6280 5 2 336 345 0.24742338 0.25368634 0.25125120 3 -25.888578 525.5317 6 4 346 355 0.25438194 0.26064468 0.25821015 3 3.362188 379.9704 7 3 356 365 0.26134008 0.26761424 0.26656002 3 -6.440961 467.3578 9 4 633 641 0.45696872 0.46253594 0.46044949 2 3.367545 380.1635 10 2 642 651 0.46323163 0.46949525 0.46706066 2 -25.872469 528.0599 11 5 652 661 0.47019392 0.47645715 0.47541186 NA -7.639719 448.9978 13 2 932 941 0.66502251 0.67128585 0.66885034 3 -25.863516 526.0176 14 4 942 951 0.67198128 0.67824424 0.67580971 3 3.382797 388.9686 15 3 952 961 0.67894198 0.68520637 0.68416039 3 -6.425117 460.7605 17 4 1227 1236 0.87377083 0.88003374 0.87759939 2 3.366406 384.2685 18 2 1237 1246 0.88072922 0.88699361 0.88455850 2 -25.868945 530.8906 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.177900 1.307914 -8.982196e-04 0.14113717 0.002729496 2.841861 3 1.177897 1.307978 -4.963116e-03 -0.16733840 0.012753096 2.922890 5 1.177025 1.307092 -5.111485e-04 1.11559648 0.003046469 3.547204 6 1.176915 1.306949 -1.414312e-04 0.50102336 0.006631567 3.739718 7 1.176967 1.307033 -1.830398e-04 -1.24793308 0.002020525 1.802005 9 1.176622 1.306601 -2.057048e-03 0.58821492 0.006112521 3.453986 10 1.176983 1.307080 -3.863123e-04 0.05125439 0.004618842 1.464730 11 1.176893 1.306998 -4.303713e-03 2.75176896 0.003049398 3.682726 13 1.176266 1.306333 1.755046e-04 -0.38866809 0.005740749 1.519437 14 1.176094 1.306198 1.622527e-03 3.15136428 0.005889775 13.580127 15 1.176287 1.306360 -3.025673e-03 -0.27932404 0.008265167 1.510810 17 1.177183 1.307365 8.986758e-06 0.81059894 0.001904822 3.194245 18 1.177512 1.307739 -2.933147e-03 1.02255332 0.009519742 4.573899 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 401.048 co2l1 = 0.944 co2l0 = 0.001" [1] "co2l0 = -198.51 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "82 out of 340 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "258 out of 1228 1-min values rejected as stack air" [1] "258 out of 1228 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"