[1] "2025-04-30 01:03:45 MDT" [1] "1601" "160116" "d016" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160116a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85428 63 [1] 85428 [1] 85428 [1] "testing skipping spike filter" [1] 85428 [1] 85428 [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 01:03:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.789" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "60 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.789" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "60 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:03:49 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:03:49 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:03:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:03:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 61 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1361 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:04:03 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 = -522.5" [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 = 408.36 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.55 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 12 [5,] 14 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 238 247 0.1694980 0.1757576 0.1733234 3 -20.644172 494.8008 3 4 248 257 0.1764530 0.1827118 0.1802780 3 2.073398 380.3734 4 5 258 267 0.1834093 0.1896668 0.1886238 NA -10.872219 466.9141 5 3 268 277 0.1903623 0.1966220 0.1955785 3 -11.500836 481.2058 7 4 527 536 0.3781608 0.3844199 0.3819858 2 2.081109 384.9671 8 2 537 546 0.3851152 0.3913749 0.3889405 2 -20.630078 496.3063 10 2 820 829 0.5869207 0.5931840 0.5907473 3 -20.688086 492.5802 11 4 830 836 0.5959656 0.6001424 0.5987514 3 2.052325 382.7817 12 3 837 844 0.6008380 0.6070995 0.6067507 3 -11.526313 486.9016 14 3 1009 1014 0.7449983 0.7484758 0.7488235 3 -11.518844 497.1207 15 2 1015 1024 0.7491713 0.7554346 0.7529996 3 -20.668172 493.0518 16 4 1025 1034 0.7561300 0.7623897 0.7599554 3 2.036586 386.4122 17 5 1035 1044 0.7630854 0.7693449 0.7683017 NA -11.726531 455.5847 19 4 1292 1301 0.9508998 0.9571630 0.9547277 2 1.992953 383.0710 20 2 1302 1311 0.9578584 0.9641191 0.9616849 2 -20.715078 496.4202 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.123519 1.267373 -0.0021291743 0.75002674 0.0057681923 2.8198150 3 1.123541 1.267313 0.0015002547 1.35429935 0.0069652307 5.3235659 4 1.123790 1.267470 -0.0008114856 -10.90371920 0.0005745243 16.9444901 5 1.123933 1.267550 -0.0007378189 -0.01587138 0.0042369729 5.8389611 7 1.124493 1.268732 0.0022646896 2.58808167 0.0065735663 8.7350517 8 1.124502 1.268722 -0.0035775904 -1.54513440 0.0094430713 7.8292075 10 1.123742 1.268137 0.0001341494 0.88496546 0.0011806369 3.5479982 11 1.124155 1.268500 0.0029393705 3.32018427 0.0050139259 7.0706608 12 1.123745 1.268121 -0.0021807019 0.26342087 0.0056846834 0.1870894 14 1.123416 1.267410 0.0027706869 17.09678204 0.0036330729 12.1083918 15 1.123643 1.267831 -0.0009862640 1.44963299 0.0030680071 5.9529515 16 1.123780 1.268141 -0.0002933843 1.78841499 0.0035545710 5.3242214 17 1.123921 1.268336 -0.0011856228 -0.78574205 0.0008396893 1.9873385 19 1.124360 1.269113 0.0003687789 1.34868826 0.0038339924 5.3433580 20 1.124453 1.269220 0.0011233073 1.66275805 0.0054894125 6.6186812 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.238 co2l1 = 0.947 co2l0 = -0.002" [1] "co2l0 = -202.41 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "16 out of 45 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "29 out of 1168 1-min values rejected as stack air" [1] "29 out of 1168 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"