[1] "2025-04-29 22:39:01 MDT" [1] "1411" "141212" "d346" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141212a.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 22:39:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.851, ave o2scale2 = 0.768" [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] "24 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.851, ave o2scale2 = 0.768" [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] "24 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:39:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:39:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:39:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:39:28 MDT" [1] "reading in recalculated plot titles" [1] "Removed 24 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1412 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:39:32 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 400.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 80 89 0.05588527 0.06214835 0.05971132 3 -25.996984 529.6525 3 4 90 99 0.06284389 0.06910405 0.06666936 3 3.270594 368.1399 4 5 100 109 0.06979977 0.07605891 0.07501559 NA -7.719094 447.7968 5 3 110 119 0.07675440 0.08301389 0.08197063 3 -6.521414 462.0001 7 4 380 389 0.26456183 0.27082948 0.26839221 2 3.333336 385.9438 8 2 390 399 0.27152488 0.27778478 0.27535017 2 -25.943570 521.2923 10 2 672 681 0.47325127 0.47951108 0.47707691 3 -25.861797 528.0445 11 4 682 691 0.48020642 0.48646991 0.48403576 3 3.420664 380.2789 12 3 692 701 0.48716551 0.49342503 0.49238148 3 -6.397281 465.1799 14 4 966 975 0.68191817 0.68817746 0.68574341 2 3.426422 390.9961 15 2 976 985 0.68887289 0.69514910 0.69270626 2 -25.826219 526.5666 16 5 986 995 0.69584444 0.70210310 0.70105996 NA -7.552594 441.2672 18 2 1266 1275 0.89066435 0.89692708 0.89449273 3 -25.777516 527.2517 19 4 1276 1285 0.89762271 0.90388194 0.90144785 3 3.479719 390.2301 20 3 1286 1295 0.90457755 0.91084028 0.90979695 3 -6.336172 466.9265 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.167367 1.293294 -3.057808e-03 1.44127936 0.008955480 6.5718797 3 1.167476 1.293460 3.077040e-03 2.80405282 0.008717350 8.5363961 4 1.167667 1.293787 -5.553938e-03 0.08888532 0.003933281 2.7415627 5 1.167885 1.294009 -1.338080e-03 0.28327106 0.004343244 0.5131442 7 1.170862 1.297289 2.536045e-03 0.79170764 0.006564748 7.4585979 8 1.171138 1.297603 1.278453e-03 0.58831015 0.006787959 3.8875546 10 1.175574 1.302740 3.536380e-04 1.69133591 0.004959518 5.0823680 11 1.175741 1.302887 1.870041e-05 0.43029213 0.004644618 3.3993009 12 1.175869 1.302989 -7.191077e-04 -1.45884738 0.002522665 3.7584385 14 1.178620 1.306086 1.383344e-03 0.64129310 0.003538492 12.9514739 15 1.178880 1.306322 1.403803e-03 -0.03788277 0.005574475 4.6568816 16 1.178904 1.306333 -2.059839e-03 0.54706859 0.001458408 1.9398499 18 1.183413 1.311511 -8.970468e-04 -0.96850874 0.002873398 4.0396110 19 1.183558 1.311648 6.879840e-04 -0.40914031 0.003302630 5.8366931 20 1.183608 1.311690 -2.041244e-03 2.97954732 0.005771674 4.6605777 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 401.043 co2l1 = 0.943 co2l0 = 0.001" [1] "co2l0 = -199.43 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "43 out of 75 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "32 out of 1205 1-min values rejected as stack air" [1] "32 out of 1205 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"