[1] "2025-04-30 01:13:06 MDT" [1] "1601" "160204" "d035" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160204a.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] "2025-04-30 01:13:10 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.892, ave o2scale2 = 0.785" [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] "67 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.892, ave o2scale2 = 0.785" [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] "66 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:13:10 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:13:10 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:13:28 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:13:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 66 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 53 row(s) with high TFRIDGE" [1] "TEMP: 1317 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:13:31 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.948 co2off = 415.62 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.74 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 184 193 0.1656401 0.1718994 0.1694655 3 -21.341500 495.3914 3 4 194 203 0.1725949 0.1788576 0.1764224 3 1.345953 383.6221 4 3 204 213 0.1795532 0.1858124 0.1847691 3 -12.194461 483.6814 8 4 482 491 0.3743352 0.3805979 0.3781606 2 1.321336 380.4082 9 2 492 501 0.3812937 0.3875525 0.3851186 2 -21.368516 497.1574 11 2 770 779 0.5830426 0.5893018 0.5868675 2 -21.428758 496.8634 14 3 787 796 0.6039113 0.6101748 0.6091313 2 -12.304875 481.3154 16 4 1050 1055 0.7917176 0.7972813 0.7957164 2 1.222812 382.8794 17 2 1056 1063 0.7986724 0.8049324 0.8024980 2 -21.475687 491.3123 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.126153 1.278686 -0.0014860781 0.1117541 0.005137181 1.252027 3 1.125977 1.278473 0.0010199289 0.4759352 0.004077890 3.599134 4 1.125853 1.278351 -0.0016486152 -2.5798294 0.004159345 3.667259 8 1.123223 1.275488 0.0006095680 -0.4695446 0.003146522 1.963478 9 1.123354 1.275621 -0.0012064681 0.7496455 0.004578037 2.945228 11 1.119277 1.271132 -0.0022339339 -0.9370204 0.005670494 3.299784 14 1.118978 1.270802 -0.0005256433 -1.2439194 0.002209456 1.723871 16 1.116677 1.267962 -0.0017867138 1.4188898 0.005480790 3.777961 17 1.116562 1.268075 -0.0006149699 1.0978210 0.004720633 4.173678 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.944 co2l1 = 0.947 co2l0 = 0.002" [1] "co2l0 = -194.4 co2l1 = 0.209" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "240 out of 1190 1-min values rejected as stack air" [1] "237 out of 1132 Line 1 1-min values rejected as stack air" [1] "3 out of 58 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"