[1] "2025-04-30 00:13:51 MDT" [1] "1505" "150616" "d167" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150616a.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] "2025-04-30 00:13:55 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 0.779" [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] "7 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 0.779" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "10 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:13:55 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:13:55 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:14:13 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:14:14 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1426 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:14:18 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 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 = 1.014 co2off = 474.3 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.07 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 25 34 0.01915654 0.02541661 0.02298230 3 -88.33848 476.4827 3 4 35 44 0.02611209 0.03237497 0.02994030 3 -67.10861 362.0384 4 3 45 54 0.03307034 0.03933330 0.03828995 3 -79.77646 463.2121 6 4 324 333 0.22791351 0.23417630 0.23174097 2 -67.17798 364.2790 7 2 334 343 0.23487164 0.24113452 0.23869999 2 -88.39197 478.5427 9 2 624 633 0.43668591 0.44298495 0.44053483 3 -88.34741 475.1007 10 4 634 643 0.44368576 0.44995370 0.44751974 3 -67.12500 364.7010 11 5 644 653 0.45064933 0.45691279 0.45586946 NA -79.18422 441.1005 12 3 654 663 0.45760802 0.46387092 0.46282784 3 -79.78786 463.8289 16 4 924 933 0.64545715 0.65171632 0.64928201 2 -67.02777 365.0517 17 2 934 943 0.65241175 0.65867289 0.65623734 2 -88.23995 484.4019 21 2 1218 1227 0.85423918 0.86050041 0.85806443 3 -88.15085 479.8713 22 4 1228 1237 0.86119792 0.86745720 0.86502325 3 -66.94579 363.7706 23 3 1238 1247 0.86815278 0.87441557 0.87337226 3 -79.60728 469.8488 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.145561 1.278962 0.0016130132 3.8092896 0.004982216 10.348309 3 1.145349 1.278735 0.0007851111 1.6930337 0.005790015 6.148011 4 1.145253 1.278602 0.0005920914 -0.6775490 0.003005192 1.242704 6 1.142261 1.275086 0.0016355489 1.8275527 0.005288648 5.158875 7 1.142360 1.275212 -0.0019128013 1.5540318 0.004827262 4.066292 9 1.145002 1.278395 0.0009669401 0.9219493 0.004310623 4.119741 10 1.145288 1.278722 0.0037460436 0.8669857 0.009221360 3.579031 11 1.145657 1.279149 -0.0040547284 -1.6886098 0.002872621 2.391489 12 1.145796 1.279347 0.0018891483 -1.1579155 0.005218737 2.938738 16 1.152566 1.287245 0.0021789239 1.4910321 0.005840317 4.797684 17 1.152907 1.287633 -0.0003485409 2.0142438 0.001805695 5.211622 21 1.162034 1.298144 0.0013521229 3.3241892 0.005105028 8.789845 22 1.162352 1.298552 0.0041112596 -0.3461786 0.011722609 5.414116 23 1.162624 1.298924 0.0009718487 2.6022891 0.003108708 4.446180 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 474.2 co2l1 = 1.014 co2l0 = 2.436" [1] "co2l0 = -197.08 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "72 out of 726 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "654 out of 1236 1-min values rejected as stack air" [1] "610 out of 1005 Line 1 1-min values rejected as stack air" [1] "44 out of 231 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"