[1] "2025-04-29 19:56:23 MDT" [1] "1312" "131201" "d335" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131201a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 73920 63 [1] 73920 [1] 73920 [1] "testing skipping spike filter" [1] 73920 [1] 73920 [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 19:56:26 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.816, ave o2scale2 = 0.741" [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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "275 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.816, ave o2scale2 = 0.741" [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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "276 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:56:26 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:56:26 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:56:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:56:37 MDT" [1] "reading in recalculated plot titles" [1] "Removed 276 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 2 row(s) with variable TFCELL" [1] "TEMP: 953 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:56:39 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -446.4" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.2" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.443 co2off = 374.85 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.01 minutes" [1] "Average Cal: 6.28 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 235 243 0.3600723 0.3656365 0.3635499 2 30.18438 211.1640 1.223348 4 2 244 247 0.3663318 0.3698091 0.3694613 2 -16.23562 314.9067 1.222971 6 2 491 495 0.5708443 0.5736262 0.5729306 2 -15.83950 297.6879 1.225737 7 4 496 499 0.5771039 0.5791902 0.5788425 2 30.26619 211.4331 1.225485 10 4 678 684 0.7788790 0.7830538 0.7816631 2 29.92946 208.9455 1.228812 11 2 685 694 0.7837492 0.7900089 0.7875746 2 -16.84474 288.5603 1.228912 14 2 935 943 0.9861775 0.9917419 0.9896553 2 -16.68510 295.4733 1.230967 15 4 944 953 0.9924374 0.9987034 0.9962665 2 29.92595 209.0680 1.231037 jfcv2 co2slp o2slp co2sd o2sd 3 1.348173 -0.0049586988 1.151762e+00 0.0115070986 2.764050 4 1.347682 -0.0007487521 4.651124e-14 0.0005303301 0.000000 6 1.349890 0.0026519769 7.928622e+00 0.0030853738 7.978220 7 1.349681 0.0018725033 7.359521e+00 0.0013258252 5.210906 10 1.353182 -0.0046317356 1.203050e+00 0.0080516642 3.136038 11 1.353358 0.0010198414 2.824077e+00 0.0101156503 11.621455 14 1.355260 -0.0006217175 7.472115e-01 0.0035558888 4.191824 15 1.355254 0.0018235720 1.597367e+00 0.0070076837 4.502912 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.605 co2l1 = 0.445 co2l0 = 0" [1] "co2l0 = -144.49 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "70 out of 165 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "95 out of 822 1-min values rejected as stack air" [1] "95 out of 822 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"