[1] "2025-04-29 22:31:00 MDT" [1] "1411" "141128" "d332" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141128a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 61800 63 [1] 61800 [1] 61800 [1] "testing skipping spike filter" [1] 61800 [1] 61800 [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 22:31:03 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.744" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "45 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.744" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "47 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:31:03 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:31:03 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:31:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:31:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 47 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 6 row(s) with variable TFCELL" [1] "TEMP: 976 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:31:15 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 = -477.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -635" [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 = 0.943 co2off = 394.67 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.11 minutes" [1] "Shortest Cal: 0 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 2 3 [2,] 4 6 [3,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 5 2 11 0.3119266 0.3181856 0.3171425 NA -5.701906 447.9654 4 4 266 275 0.4997426 0.5060019 0.5035677 2 4.958359 382.9914 5 2 276 285 0.5066973 0.5129569 0.5105225 2 -24.325133 527.1402 7 2 563 572 0.7084108 0.7146701 0.7122360 3 -24.395047 526.2526 8 4 573 582 0.7153656 0.7216250 0.7191907 3 4.882211 373.1195 9 3 583 592 0.7223205 0.7285801 0.7275366 3 -4.931812 461.9164 11 4 862 871 0.9171069 0.9233659 0.9209319 2 4.869859 383.7451 12 2 872 881 0.9240617 0.9303213 0.9278870 2 -24.414562 531.6728 13 5 882 891 0.9310163 0.9372758 0.9362328 NA -5.956094 442.2883 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.213934 1.348469 -0.0034330656 3.1380129 0.0024306796 6.343494 4 1.215281 1.348207 0.0012332242 1.3977575 0.0047154228 8.845916 5 1.215314 1.348318 -0.0001790275 -0.1881876 0.0052873288 4.654304 7 1.212135 1.342103 -0.0012645061 0.6957823 0.0042511487 3.599561 8 1.212249 1.342219 0.0010081499 0.8646220 0.0038973917 4.708227 9 1.212710 1.342760 -0.0041034293 9.7620590 0.0105143928 13.278737 11 1.212632 1.343161 0.0010148685 4.9248985 0.0032793574 14.846054 12 1.212682 1.343285 -0.0039094154 0.8721440 0.0116415972 2.915184 13 1.212771 1.343391 -0.0008114856 10.4492081 0.0005745243 15.004390 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.613 co2l1 = 0.943 co2l0 = 0.003" [1] "co2l0 = -195.34 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "119 out of 155 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "36 out of 830 1-min values rejected as stack air" [1] "36 out of 830 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"