[1] "2025-04-30 01:03:15 MDT" [1] "1601" "160115" "d015" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160115a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 01:03:19 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.785" [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] "71 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.785" [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] "71 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:03:20 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:03:20 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:03:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:03:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 71 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 423 row(s) with high TFRIDGE" [1] "TEMP: 942 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:03:40 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 = -522.4" [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 = 0.947 co2off = 398.38 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.51 minutes" [1] "Average Cal: 7.51 minutes" [1] "Shortest Cal: 1 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,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 209 217 0.3354212 0.3409848 0.3388982 3 -20.507134 492.5930 3 4 218 226 0.3416804 0.3472442 0.3451577 3 2.212705 371.0065 4 3 227 236 0.3486350 0.3548947 0.3538515 3 -11.352469 483.9495 6 4 332 341 0.5434381 0.5496978 0.5472635 2 2.208938 379.9061 7 2 342 351 0.5503931 0.5566528 0.5542184 2 -20.506586 491.7226 9 2 618 626 0.7521189 0.7583785 0.7561928 3 -20.526971 494.3526 10 4 627 633 0.7590760 0.7632506 0.7618598 3 2.196538 375.8012 11 3 634 641 0.7674237 0.7722922 0.7719445 3 -11.370542 484.7030 13 4 896 903 0.9608056 0.9670653 0.9650948 1 2.122896 378.3222 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.129314 1.273659 0.0005705517 -0.2784963 0.003413062 1.546206 3 1.129231 1.273728 0.0033477075 4.0633243 0.008178089 8.925821 4 1.129810 1.274287 -0.0001262785 -0.6371550 0.001205456 2.000907 6 1.129837 1.274476 0.0014218402 1.3346388 0.005131964 5.318226 7 1.130055 1.274688 0.0002592907 1.0192588 0.002404873 2.721549 9 1.129271 1.273784 0.0013513066 2.4044611 0.003823777 7.332567 10 1.129184 1.273709 0.0046557763 1.0649011 0.007547195 2.833780 11 1.129196 1.273662 -0.0010625720 3.9536290 0.003540760 2.799249 13 1.124806 1.269052 0.0022620055 -1.1312940 0.006610322 4.285752 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.109 co2l1 = 0.947 co2l0 = -0.003" [1] "co2l0 = -196.93 co2l1 = 0.214" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "7 out of 130 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "123 out of 828 1-min values rejected as stack air" [1] "123 out of 828 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"