[1] "2025-04-29 19:19:06 MDT" [1] "1309" "130916" "d259" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130916a.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 19:19:10 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.703" [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] "15 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.703" [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 19:19:11 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:19:11 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:19:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:19:34 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 19:19:49 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.6" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.427 co2off = 379.5 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: 9.04 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 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 259 268 0.1827545 0.1890139 0.1865796 3 -12.44776 287.7283 1.311449 3 4 269 278 0.1897095 0.1959689 0.1935348 3 36.37533 198.0546 1.311228 4 3 279 288 0.1966644 0.2029237 0.2018804 3 62.00052 125.5108 1.311196 6 4 557 566 0.3914499 0.3977104 0.3952758 2 36.57655 203.0514 1.307519 7 2 567 576 0.3984057 0.4046656 0.4022313 2 -11.88255 289.6245 1.307362 8 5 577 586 0.4053611 0.4116381 0.4105927 NA 28.56178 179.0096 1.306637 11 2 857 866 0.6001957 0.6064587 0.6040214 3 -11.69350 286.7748 1.301583 12 4 867 876 0.6071543 0.6134176 0.6109812 3 36.54241 198.7297 1.301387 13 3 877 886 0.6141128 0.6203727 0.6193292 3 61.80135 125.1466 1.301182 15 4 1157 1166 0.8088748 0.8151377 0.8127027 2 36.72272 197.7083 1.295603 16 2 1167 1176 0.8158332 0.8220949 0.8196587 2 -11.21323 290.1640 1.295562 jfcv2 co2slp o2slp co2sd o2sd 2 1.431215 -0.0117375631 -0.28366810 0.030003021 2.8452517 3 1.430974 0.0037029088 0.74537382 0.012058949 5.3595341 4 1.430943 0.0049573193 0.26206441 0.017645876 0.5256029 6 1.427238 0.0013837207 0.63379211 0.006518127 3.3024186 7 1.427090 -0.0008825336 -0.06758043 0.006349191 3.6452954 8 1.426344 -0.0621209604 3.81974661 0.044061591 5.7232423 11 1.421327 -0.0067580984 -0.09471818 0.018115145 3.5113301 12 1.421131 0.0069677864 1.96359203 0.017991690 5.4389236 13 1.420965 -0.0058395968 -7.80281235 0.017412342 10.5467781 15 1.415318 0.0025391969 1.60727229 0.010267624 4.7170517 16 1.415316 -0.0013584630 -1.59899068 0.015772693 4.5941791 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.357 co2l1 = 0.424 co2l0 = 0.109" [1] "co2l0 = -140.83 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "36 out of 210 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "174 out of 1263 1-min values rejected as stack air" [1] "172 out of 643 Line 1 1-min values rejected as stack air" [1] "2 out of 620 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"