[1] "2025-04-29 21:49:04 MDT" [1] "1406" "140812" "d224" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140812a.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 21:49:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.836, ave o2scale2 = 0.754" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.836, ave o2scale2 = 0.754" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:49:09 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:49:09 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:49:27 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:49:28 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:49:33 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 = -476.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 386.37 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 244 253 0.1703712 0.1766308 0.1741969 2 37.98613 137.8947 1.197946 3 2 254 263 0.1773264 0.1835861 0.1811518 2 -20.42408 283.9938 1.198127 5 2 544 553 0.3790953 0.3853582 0.3829237 3 -20.42704 282.1627 1.197257 6 4 554 563 0.3860536 0.3923168 0.3898812 3 37.95566 139.3181 1.197181 7 3 564 573 0.3930122 0.3992714 0.3982283 3 18.19409 216.6101 1.197217 9 4 844 853 0.5877946 0.5940535 0.5916195 2 37.98884 136.6337 1.197316 10 2 854 863 0.5947490 0.6010084 0.5985745 2 -20.39141 280.2003 1.197740 11 5 864 873 0.6017038 0.6079638 0.6069203 NA 15.80537 197.4314 1.197565 13 2 1143 1152 0.7962374 0.8025001 0.8000658 3 -20.34626 280.9386 1.196004 14 4 1153 1162 0.8031956 0.8094552 0.8070212 3 38.05499 137.2735 1.196041 15 3 1163 1172 0.8101505 0.8164106 0.8153672 3 18.25093 218.6295 1.195989 jfcv2 co2slp o2slp co2sd o2sd 2 1.328409 0.0011138383 1.097586262 0.008760226 2.992435 3 1.328621 -0.0068372239 -0.134013355 0.017310929 3.256717 5 1.327652 -0.0041463093 0.002775496 0.010397509 2.531409 6 1.327567 0.0044375090 0.738357006 0.016610256 3.322159 7 1.327612 -0.0029463627 0.484630937 0.007849804 2.380153 9 1.327700 -0.0002578889 -0.046574064 0.004989379 1.722004 10 1.328184 -0.0014124191 -0.173181381 0.007141502 1.624906 11 1.327984 0.0022470975 -0.869008942 0.001590990 1.806117 13 1.326229 -0.0057646324 -1.396536369 0.014871790 3.623403 14 1.326259 0.0046055568 0.448045895 0.019460767 2.532433 15 1.326208 -0.0005712282 -1.822977085 0.006793054 2.515436 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.282 co2l1 = 0.473 co2l0 = 0.08" [1] "co2l0 = -144.18 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "95 out of 363 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "268 out of 1278 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "268 out of 1278 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"