[1] "2025-04-29 21:26:39 MDT" [1] "1406" "140703" "d184" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140703a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 21:26:43 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:26:43 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:26:43 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:27:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:27:07 MDT" [1] "reading in recalculated plot titles" [1] "TEMP: 1436 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:27:12 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.47 co2off = 382.38 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: 9.02 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 2 118 127 0.08266736 0.08893056 0.08649341 3 -11.63346 280.5543 3 4 128 137 0.08962616 0.09588906 0.09345282 3 47.28749 133.6758 4 3 138 147 0.09658455 0.10284757 0.10180447 3 27.29388 209.7773 6 4 418 427 0.29143154 0.29769097 0.29525663 2 47.10082 134.5729 7 2 428 437 0.29838628 0.30464896 0.30221470 2 -11.84277 281.9522 8 5 438 447 0.30534586 0.31160689 0.31056388 NA 24.97125 196.4761 10 2 718 727 0.50015992 0.50642277 0.50398749 3 -12.08739 281.2274 11 4 728 737 0.50711814 0.51338113 0.51094657 3 46.82165 133.5461 12 3 738 747 0.51407639 0.52033912 0.51929593 3 26.82601 211.9767 14 4 1018 1027 0.70890958 0.71517237 0.71273734 2 46.62441 133.3091 15 2 1028 1037 0.71586777 0.72213079 0.71969654 2 -12.28746 280.8783 17 2 1318 1327 0.91766409 0.92392323 0.92148903 3 -12.51798 281.1080 18 4 1328 1337 0.92461881 0.93087847 0.92844423 3 46.35332 135.0151 19 5 1338 1347 0.93157407 0.93783333 0.93678999 NA 23.68341 199.5363 20 3 1348 1357 0.93852894 0.94478819 0.94374485 3 26.38086 215.1868 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.199336 1.330558 -0.003706534 0.99213187 0.009162164 2.452655 3 1.199265 1.330482 0.002228179 -0.11095251 0.013025320 1.229458 4 1.199309 1.330561 -0.002496483 -0.66816152 0.007730967 1.433454 6 1.202518 1.334105 0.003147814 0.44799597 0.010466967 3.798194 7 1.202636 1.334228 -0.009287467 -0.19473980 0.023254794 3.882809 8 1.202596 1.334190 -0.012734612 -1.49433712 0.009015611 2.169963 10 1.203527 1.335244 -0.001054235 -0.05112452 0.008468544 4.529418 11 1.203525 1.335289 0.000286512 0.82410626 0.015495281 6.447136 12 1.203647 1.335402 -0.002119930 1.46935190 0.008155741 4.775684 14 1.204048 1.335875 -0.002782238 1.47344059 0.011066459 5.857621 15 1.204337 1.336197 -0.005941411 2.49003309 0.016083624 7.369716 17 1.204256 1.335869 -0.003182581 -0.07115296 0.008284678 1.108139 18 1.204451 1.336095 0.005866955 0.79052420 0.015560812 8.565812 19 1.205265 1.337054 -0.035507759 -4.82583455 0.025146485 6.286032 20 1.205221 1.337195 -0.004024114 1.89638904 0.010225349 2.853388 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.299 co2l1 = 0.469 co2l0 = 0.058" [1] "co2l0 = -142.61 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "64 out of 140 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "76 out of 1229 1-min values rejected as stack air" [1] "76 out of 1229 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"