[1] "2025-04-29 20:25:13 MDT" [1] "1401" "140130" "d030" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140130a.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 20:25:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.737" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.81, ave o2scale2 = 0.737" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "2 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:25:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:25:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:25:33 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:25:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:25:49 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 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.459 co2off = 383.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.002467708 0.008036256 0.005948177 2 55.207929 160.0334 2 2 10 19 0.008731713 0.014991840 0.012557310 2 -4.955953 305.1669 4 2 300 309 0.210465307 0.216724769 0.214290795 3 -4.822906 301.8392 5 4 310 319 0.217420457 0.223679774 0.221245674 3 55.168297 165.2481 6 5 320 329 0.224375145 0.230638773 0.229595457 NA 30.218719 226.0250 7 3 330 339 0.231334086 0.237593779 0.236550383 3 34.651086 243.3769 9 4 600 609 0.419208333 0.425467708 0.423033836 2 55.295508 159.9779 10 2 610 619 0.426163194 0.432422483 0.429988458 2 -5.141078 298.0785 12 2 900 909 0.627877315 0.634142564 0.631705563 3 -5.418937 308.1671 13 4 910 919 0.634837963 0.641098090 0.638663704 3 55.360898 162.9794 14 3 920 929 0.641793461 0.648057668 0.647014417 3 34.634000 248.1852 16 4 1200 1209 0.836570399 0.842829282 0.840395215 2 55.380836 157.9190 17 2 1210 1219 0.843525492 0.849784664 0.847350401 2 -4.652086 304.6135 18 5 1220 1229 0.850479977 0.856739583 0.855696260 NA 30.546094 222.7130 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.232085 1.354357 -0.0047245648 1.89869062 0.011306192 4.6532509 2 1.232239 1.354504 0.0009820276 3.33073040 0.007853269 11.1750838 4 1.233269 1.355599 -0.0000476900 4.46125215 0.004763257 11.1095953 5 1.233144 1.355477 -0.0006745213 1.04562875 0.008925207 7.8741749 6 1.233237 1.355557 -0.0376310534 1.03612144 0.026649087 1.4980959 7 1.233329 1.355653 -0.0061336212 -5.08739134 0.015437154 8.1523589 9 1.234788 1.357237 0.0013187285 1.23607734 0.004635056 4.0966060 10 1.235001 1.357518 0.0019673847 4.85203564 0.008469401 14.2026220 12 1.236048 1.358605 -0.0079182601 3.25942769 0.021271470 8.2557341 13 1.236089 1.358642 0.0073027888 -0.03783502 0.020668864 2.5926402 14 1.236194 1.358752 0.0037509761 1.50383010 0.010765873 4.1290468 16 1.237509 1.360204 0.0006336928 4.44490623 0.005128368 11.8060782 17 1.237653 1.360391 0.0017557768 6.38279030 0.007830012 16.1121328 18 1.237669 1.360483 -0.0293885191 -0.12527954 0.020815456 0.9241433 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.922 co2l1 = 0.458 co2l0 = 0.02" [1] "co2l0 = -149.82 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "193 out of 395 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "202 out of 1245 1-min values rejected as stack air" [1] "202 out of 1245 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"