[1] "2025-04-30 03:01:40 MDT" [1] "1704" "170525" "d145" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170525a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 03:01:44 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.865, ave o2scale2 = 0.901" [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] "29 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.865, ave o2scale2 = 0.901" [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] "29 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:01:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:01:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:02:05 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:02:06 MDT" [1] "reading in recalculated plot titles" [1] "Removed 29 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1373 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:02:16 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.482 co2off = 367.54 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.97 minutes" [1] "Shortest Cal: 6.15 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 211 217 0.1632196 0.1689115 0.1674885 2 8.756250 172.1168 1.150631 3 2 218 226 0.1696229 0.1753208 0.1731859 2 6.026107 336.9995 1.150896 6 2 497 505 0.3711665 0.3768647 0.3747289 3 6.028545 335.6823 1.153039 7 4 506 514 0.3775776 0.3832782 0.3811383 3 8.758536 171.8580 1.153047 8 3 515 522 0.3839924 0.3889743 0.3886185 3 5.231719 321.5239 1.153017 10 4 783 791 0.5792351 0.5849416 0.5828011 2 8.747330 174.6279 1.157812 11 2 792 800 0.5856536 0.5913538 0.5892147 2 6.026116 333.2527 1.158066 13 2 1075 1083 0.7873318 0.7930369 0.7908972 3 5.996170 334.5859 1.162032 14 4 1084 1092 0.7937488 0.7994402 0.7973061 3 8.707714 169.4303 1.162067 16 3 1102 1110 0.8065706 0.8122670 0.8115538 3 5.183536 317.8268 1.162476 18 4 1367 1373 0.9954138 0.9996852 0.9982608 1 8.713913 171.8593 1.165190 jfcv2 co2slp o2slp co2sd o2sd 2 1.104341 -6.100755e-04 3.39268669 0.0019223196 5.833125 3 1.104515 2.521787e-05 -0.44050771 0.0013023988 2.652254 6 1.106619 -1.458789e-03 1.97046660 0.0042924829 7.221984 7 1.106543 -3.868475e-04 3.63470209 0.0009077625 8.188009 8 1.106512 -9.147947e-04 6.29875577 0.0023857487 4.563013 10 1.111363 -2.712733e-04 1.57946623 0.0008732977 4.195894 11 1.111526 1.276361e-03 2.46639238 0.0030156770 5.896371 13 1.115587 -1.685469e-03 2.86533727 0.0041820104 7.214975 14 1.115538 2.235706e-03 2.44285854 0.0057925124 5.729685 16 1.115826 -1.448314e-03 0.01156775 0.0033283538 1.030906 18 1.118554 2.961237e-03 1.71434683 0.0049128340 4.751903 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.006 co2l1 = 4.467 co2l0 = 0.557" [1] "co2l0 = -163.15 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "209 out of 595 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "386 out of 1214 1-min values rejected as stack air" [1] "386 out of 1214 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"