[1] "2025-04-29 20:41:51 MDT" [1] "1402" "140227" "d058" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140227a.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 20:41:55 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.742" [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 = 0.815, ave o2scale2 = 0.742" [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 20:41:56 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:41:56 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:42:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:42:13 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 20:42:21 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 = -475.9" [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 = 0.44 co2off = 378.7 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 60 69 0.04185958 0.04811843 0.04568444 3 -3.858922 303.6136 3 4 70 79 0.04881383 0.05507329 0.05263932 3 58.490570 158.9770 4 3 80 89 0.05576869 0.06202804 0.06098471 3 37.096852 242.9962 6 4 360 369 0.25071033 0.25696982 0.25453541 2 58.481359 160.5665 7 2 370 379 0.25766522 0.26392650 0.26149047 2 -4.093641 305.8262 8 5 380 389 0.26462454 0.27089005 0.26984456 NA 33.288281 218.9572 10 2 659 668 0.45941204 0.46567477 0.46323827 3 -4.446242 316.5563 11 4 669 678 0.46637037 0.47263012 0.47019569 3 58.483789 163.9731 12 3 679 688 0.47332552 0.47958906 0.47854499 3 36.939695 251.6419 14 4 958 967 0.66810043 0.67435920 0.67192526 2 58.518703 163.0273 15 2 968 977 0.67505498 0.68132182 0.67888396 2 -4.822852 305.1048 17 2 1258 1267 0.87677347 0.88303278 0.88059884 3 -5.061898 305.9889 18 4 1268 1277 0.88372810 0.88999074 0.88755654 3 58.568266 159.8332 19 5 1278 1287 0.89068634 0.89694907 0.89590587 NA 32.919625 219.2297 20 3 1288 1297 0.89764468 0.90390414 0.90286113 3 36.764578 248.3729 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.217527 1.336783 -4.182766e-03 0.01684903 0.011400225 4.1420411 3 1.217391 1.336629 7.124339e-03 1.36170505 0.020033132 3.8898617 4 1.217427 1.336676 1.775649e-04 1.06991786 0.007347401 1.3881895 6 1.220240 1.339712 4.455817e-03 1.25492186 0.011250980 4.6617967 7 1.220600 1.340141 -6.496706e-03 1.57028208 0.018290188 5.3506092 8 1.220905 1.340502 -3.966705e-02 3.34601146 0.028151689 4.5761564 10 1.226965 1.347299 -3.432498e-03 -0.76691210 0.012943060 21.7115089 11 1.226902 1.347251 1.123176e-02 1.36953966 0.029373194 4.5361652 12 1.227026 1.347347 -1.534980e-03 8.38773134 0.007925465 18.2052373 14 1.232046 1.352329 -3.542284e-03 0.99858777 0.012100018 4.1513478 15 1.232182 1.352460 2.732122e-03 1.87428056 0.008557639 5.5654436 17 1.236167 1.356726 -1.924724e-03 2.22775420 0.008892710 6.5051593 18 1.236163 1.356709 8.437665e-03 -0.09387515 0.024777171 3.9921176 19 1.236322 1.356871 -4.342943e-02 -0.23753633 0.030759145 0.7093840 20 1.236315 1.356878 2.680407e-05 0.16656539 0.002664404 0.3654237 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.602 co2l1 = 0.439 co2l0 = 0.012" [1] "co2l0 = -148.91 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1227 1-min values rejected as stack air" [1] "0 out of 1227 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] "making html"