[1] "2025-04-29 21:32:31 MDT" [1] "1406" "140713" "d194" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140713a.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 21:32:35 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.828, ave o2scale2 = 0.746" [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 = 0.828, ave o2scale2 = 0.745" [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 21:32:36 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:32:36 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:32:56 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:32:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:33:02 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 = 404.23 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 = 0.472 co2off = 385.63 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: 9.03 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 jfcv1 2 2 145 154 0.1019168 0.1081800 0.1057450 3 -19.03395 275.3362 1.199294 3 4 155 164 0.1088755 0.1151389 0.1127030 3 39.48950 131.7780 1.201133 4 3 165 174 0.1158343 0.1221065 0.1210609 3 19.62918 219.8973 1.202213 6 4 445 454 0.3107190 0.3169817 0.3145478 2 39.67218 130.4232 1.213245 7 2 455 464 0.3176791 0.3239435 0.3215063 2 -18.83435 279.4900 1.213410 8 5 465 474 0.3246389 0.3309016 0.3298572 NA 17.22828 193.4688 1.213526 10 2 745 754 0.5194641 0.5257269 0.5232919 3 -18.89599 278.0958 1.213077 11 4 755 764 0.5264224 0.5326852 0.5302512 3 39.60995 134.5113 1.212811 12 3 765 774 0.5333808 0.5396435 0.5386002 3 19.78724 215.8683 1.212183 14 4 1045 1054 0.7282535 0.7345128 0.7320786 2 39.43037 137.9544 1.208213 15 2 1055 1064 0.7352084 0.7414677 0.7390337 2 -19.06612 280.7176 1.207963 17 2 1345 1354 0.9370012 0.9432658 0.9408311 3 -19.20619 279.5149 1.200652 18 4 1355 1364 0.9439612 0.9502251 0.9477901 3 39.26534 134.6074 1.199949 19 5 1365 1374 0.9509236 0.9571864 0.9561406 NA 16.88547 195.4659 1.199724 20 3 1375 1384 0.9578819 0.9641451 0.9631021 3 19.38865 215.9190 1.199265 jfcv2 co2slp o2slp co2sd o2sd 2 1.332548 -0.0003377620 -1.4105018 0.009185268 3.704748 3 1.334549 0.0044189081 -0.1388143 0.015968300 2.150017 4 1.335709 -0.0053789970 2.7950624 0.013634517 3.649966 6 1.347963 -0.0061330706 0.9121567 0.015419811 2.812405 7 1.348190 -0.0086580097 0.5018949 0.021683729 5.915494 8 1.348321 -0.0058047603 -5.2731275 0.004110058 7.079880 10 1.347975 -0.0035597726 0.4459188 0.010704505 2.789079 11 1.347701 0.0022226063 0.5855014 0.011625501 4.647416 12 1.346992 -0.0002226777 -2.7324326 0.003219194 3.915474 14 1.342504 0.0006492419 -0.4864578 0.005979224 4.072116 15 1.342181 -0.0052926039 2.1687551 0.017168624 7.948186 17 1.334127 -0.0091110692 0.1871628 0.022921401 2.691539 18 1.333341 -0.0004952434 -0.9118750 0.011851857 3.677951 19 1.333080 -0.0118761399 1.1605286 0.008441087 1.996438 20 1.332572 -0.0018760609 -1.0902737 0.009167035 1.442928 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.613 co2l1 = 0.472 co2l0 = 0.088" [1] "co2l0 = -143.22 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "172 out of 485 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "313 out of 1228 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "313 out of 1228 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"