[1] "2025-04-29 20:38:00 MDT" [1] "1402" "140220" "d051" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140220a.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] "2025-04-29 20:38:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.747" [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] "2 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.747" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:38:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:38:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:38:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:38:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:38:28 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.432 co2off = 367.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.63 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 222 231 0.1547710 0.1610313 0.1585965 2 61.350258 158.4755 1.226265 3 2 232 241 0.1617268 0.1679896 0.1655522 2 -3.251828 301.7658 1.226121 7 2 520 529 0.3634769 0.3697363 0.3673022 3 -2.930609 302.7071 1.218824 8 4 530 539 0.3704318 0.3766910 0.3742569 3 61.091805 156.7115 1.218482 9 5 540 549 0.3773866 0.3836464 0.3826033 NA 34.588281 220.9136 1.218239 10 3 550 559 0.3843418 0.3906019 0.3895585 3 39.082391 240.0030 1.217979 12 4 820 829 0.5721494 0.5784093 0.5759751 2 60.916789 160.3487 1.215929 13 2 830 839 0.5791046 0.5853645 0.5829301 2 -2.807789 306.8365 1.215867 15 2 1120 1129 0.7808423 0.7871011 0.7846671 3 -2.963250 302.7964 1.217353 16 4 1130 1139 0.7877964 0.7940565 0.7916221 3 60.833977 159.2541 1.217292 17 3 1140 1149 0.7947518 0.8010148 0.7999705 3 38.974180 240.6991 1.217409 19 4 1420 1429 0.9895128 0.9957761 0.9933399 2 60.731391 158.2301 1.217810 20 2 1430 1434 0.9964712 0.9992533 0.9985578 2 -3.021000 293.5327 1.217943 jfcv2 co2slp o2slp co2sd o2sd 2 1.346144 -0.0047176783 1.82716929 0.013175983 5.440849 3 1.346011 -0.0151086006 1.81456601 0.037569575 4.713454 7 1.338422 0.0090213518 1.72296220 0.022166143 6.277346 8 1.338075 0.0030590487 1.41800256 0.013987576 3.818306 9 1.337792 -0.0415054300 -0.01623823 0.029389126 1.768263 10 1.337529 -0.0003744737 -1.26896892 0.008566100 1.862811 12 1.335297 0.0021223949 0.78205767 0.015940526 2.751561 13 1.335261 -0.0003559918 1.22103472 0.013076182 4.849758 15 1.336968 0.0056241938 2.61143498 0.014719399 6.724319 16 1.336898 0.0032664590 0.72146452 0.018609232 2.461076 17 1.337000 -0.0024902318 -0.79100811 0.009857491 1.313983 19 1.337374 0.0015589111 0.47300905 0.010729463 2.204541 20 1.337374 -0.0073949067 5.09270849 0.008199419 5.192919 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.93 co2l1 = 0.432 co2l0 = -0.009" [1] "co2l0 = -149.06 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "59 out of 205 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "146 out of 1273 1-min values rejected as stack air" [1] "105 out of 1217 Line 1 1-min values rejected as stack air" [1] "41 out of 56 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"