[1] "2025-04-29 22:36:04 MDT" [1] "1411" "141207" "d341" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141207a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83990 63 [1] 83990 [1] 83990 [1] "testing skipping spike filter" [1] 83990 [1] 83990 [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 22:36:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.851, ave o2scale2 = 0.768" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "48 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.851, ave o2scale2 = 0.768" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "49 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:36:09 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:36:09 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:36:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:36:22 MDT" [1] "reading in recalculated plot titles" [1] "Removed 49 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 7 row(s) with variable TFCELL" [1] "TEMP: 1342 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:36:25 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.945 co2off = 389.65 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.68 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.64 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 6 [4,] 7 8 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 15 19 0.06415903 0.06694097 0.06624538 1 3.492292 376.7083 5 4 274 283 0.25546759 0.26172882 0.25929444 2 3.507195 379.6105 6 2 284 293 0.26242416 0.26869948 0.26625372 2 -25.773594 529.0753 8 2 573 582 0.46415741 0.47042060 0.46798388 3 -25.761016 526.9223 9 4 583 592 0.47111597 0.47737595 0.47494136 3 3.512875 381.0389 10 3 593 602 0.47807133 0.48433429 0.48329094 3 -6.304203 457.0041 12 4 873 882 0.67282645 0.67908588 0.67665196 2 3.471125 383.1478 13 2 883 892 0.67978128 0.68647865 0.68390758 2 -25.798430 528.7862 14 5 893 902 0.68717410 0.69343730 0.69239397 NA -7.576844 444.1225 16 2 1172 1181 0.88126279 0.88752216 0.88508824 3 -25.804312 528.9725 17 4 1182 1191 0.88821759 0.89448035 0.89204599 3 3.469812 381.7612 18 3 1192 1201 0.89517595 0.90143579 0.90039269 3 -6.340719 464.5187 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.172209 1.298840 -0.0050541708 -5.49879198 0.005142247 6.653951 5 1.174297 1.300862 -0.0007124045 2.42413031 0.004259370 9.901202 6 1.174468 1.301062 -0.0025739309 -1.42971234 0.007730101 4.244478 8 1.176084 1.302898 -0.0001620747 0.26221579 0.001751514 1.872267 9 1.175993 1.302801 0.0010102042 -0.77671713 0.004520538 2.527729 10 1.176078 1.302906 0.0002511738 0.07219883 0.002157253 2.526834 12 1.176037 1.302883 -0.0008812289 -0.92174896 0.003668915 3.142624 13 1.176184 1.303039 -0.0003641545 1.69683094 0.005833099 5.237503 14 1.176445 1.303331 -0.0033076763 1.24679670 0.002342291 1.816460 16 1.176751 1.303664 0.0005914934 -0.57217643 0.003961590 3.227423 17 1.176796 1.303700 0.0016600677 -1.74679774 0.005616760 4.749724 18 1.176977 1.303897 0.0018541827 1.78069495 0.006596807 2.572932 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.945 co2l1 = 0.943 co2l0 = 0.001" [1] "co2l0 = -196 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "46 out of 50 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "4 out of 1151 1-min values rejected as stack air" [1] "4 out of 1151 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"