[1] "2025-04-29 20:57:45 MDT" [1] "1403" "140331" "d090" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140331a.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 20:57:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.74" [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] "14 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.74" [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] "14 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:57:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:57:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:58:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:58:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 14 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1422 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:58:15 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 = -476.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [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 = 0.386 co2off = 372.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 157 166 0.1101688 0.1164282 0.1139937 2 83.18717 128.5902 1.224953 3 2 167 174 0.1171235 0.1219917 0.1202529 2 11.38459 272.7103 1.225281 5 2 455 464 0.3188088 0.3250678 0.3226336 3 11.23586 272.7455 1.229204 6 4 465 474 0.3257631 0.3320224 0.3295884 3 82.95867 127.4204 1.229256 7 3 475 484 0.3327177 0.3389771 0.3379338 3 58.37207 211.5689 1.229335 9 4 755 762 0.5274481 0.5323168 0.5305781 2 82.81764 130.7694 1.231652 10 2 763 772 0.5344028 0.5406622 0.5382280 2 11.12338 272.5755 1.231434 11 5 773 782 0.5413577 0.5476169 0.5465736 NA 53.54159 191.3607 1.231520 13 2 1053 1062 0.7360889 0.7423483 0.7399138 3 11.04355 274.8703 1.230267 14 4 1063 1072 0.7430437 0.7493025 0.7468685 3 82.40315 125.0335 1.230198 15 3 1073 1082 0.7499978 0.7562571 0.7552143 3 57.93845 204.8787 1.229755 17 4 1352 1361 0.9447762 0.9510351 0.9486011 2 82.07323 127.4241 1.224084 18 2 1362 1371 0.9517305 0.9579898 0.9555558 2 11.23315 267.6527 1.224188 jfcv2 co2slp o2slp co2sd o2sd 2 1.347207 -0.0041289729 1.0994414 0.012556513 2.806350 3 1.347570 -0.0059924051 2.7866229 0.013114386 6.362765 5 1.351644 -0.0010075449 1.6967749 0.008231090 5.567828 6 1.351709 0.0002601063 0.7826275 0.013183151 2.437050 7 1.351811 -0.0054095202 1.3654428 0.013505556 1.798683 9 1.354536 0.0123107862 0.8892169 0.023292214 2.670999 10 1.354316 -0.0073833022 1.0285487 0.019224863 5.321027 11 1.354388 -0.0595881864 -5.4950016 0.042205436 7.292455 13 1.352927 0.0007956274 1.8571076 0.004715622 5.719959 14 1.352832 -0.0011627178 -0.2648362 0.015070702 1.673297 15 1.352346 -0.0072490065 -1.6419285 0.018542857 3.223217 17 1.346134 0.0056191414 2.4397705 0.015888806 6.543685 18 1.346272 0.0011493283 0.2947463 0.006059502 3.630481 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.309 co2l1 = 0.386 co2l0 = -0.222" [1] "co2l0 = -141.89 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "75 out of 259 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "184 out of 1244 1-min values rejected as stack air" [1] "184 out of 1244 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"