[1] "2025-04-29 20:43:27 MDT" [1] "1402" "140302" "d061" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140302a.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 20:43:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.738" [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] "9 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.738" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:43:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:43:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:43:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:43:50 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1427 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:43:56 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 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.431 co2off = 384.12 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.52 minutes" [1] "Shortest Cal: 4.08 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 3 1 5 0.0008506944 0.003684491 0.00437989 1 36.563958 263.2616 3 4 270 277 0.1929092014 0.198473380 0.19661852 2 58.325533 160.0427 4 2 278 287 0.1991689815 0.205428270 0.20299384 2 -5.561000 301.3184 6 2 568 577 0.4009502604 0.407209925 0.40477582 3 -5.967914 304.9317 7 4 578 587 0.4079053530 0.414168519 0.41173403 3 58.398461 163.0426 8 5 588 597 0.4148650174 0.421127344 0.42008393 NA 32.237875 222.5578 9 3 598 607 0.4218229745 0.428082234 0.42703916 3 36.368758 244.2407 11 4 868 877 0.6096369502 0.615896528 0.61346242 2 58.369961 160.6680 12 2 878 887 0.6165919560 0.622851852 0.62041726 2 -6.107109 301.6158 14 2 1168 1177 0.8183174479 0.824577546 0.82214329 3 -5.649281 308.4715 15 4 1178 1187 0.8252728588 0.831535735 0.82910154 3 58.269219 158.7613 16 3 1188 1197 0.8322311921 0.838494126 0.83745080 3 36.370672 237.3354 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.227310 1.347558 0.0053681823 18.2138043 0.005387099 18.8489198 3 1.232423 1.352724 0.0048741937 -0.5957341 0.011163569 2.3116616 4 1.232712 1.352977 0.0100408884 1.6582361 0.025953599 6.7691294 6 1.237429 1.358074 -0.0077222340 0.4757483 0.019308872 2.7331975 7 1.237680 1.358353 0.0076080415 0.6355760 0.023226849 3.1475732 8 1.237827 1.358509 -0.0309471320 -0.2470762 0.021920310 0.9113476 9 1.237737 1.358422 0.0009030051 0.1133344 0.011437058 1.7956390 11 1.238982 1.360026 0.0012160869 1.0742477 0.010476320 4.6259437 12 1.238958 1.359971 -0.0074534539 2.6452437 0.018845523 7.8591931 14 1.233600 1.354137 -0.0049825215 2.0438635 0.013253874 8.2814841 15 1.233207 1.353716 0.0019504775 4.8100574 0.018633627 12.0108654 16 1.232944 1.353440 0.0024414013 8.2147113 0.010737625 12.4802515 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.155 co2l1 = 0.431 co2l0 = 0.027" [1] "co2l0 = -150.65 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "80 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "195 out of 1268 1-min values rejected as stack air" [1] "191 out of 1131 Line 1 1-min values rejected as stack air" [1] "4 out of 137 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"