[1] "2025-04-29 23:02:10 MDT" [1] "1501" "150202" "d033" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150202a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85080 63 [1] 85080 [1] 85080 [1] "testing skipping spike filter" [1] 85080 [1] 85080 [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 23:02:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.854, ave o2scale2 = 0.77" [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] "17 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.854, ave o2scale2 = 0.77" [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] "17 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:02:14 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:02:14 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:02:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:02:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 17 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1400 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:02:38 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 = -477.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [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 CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.938 co2off = 392.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.74 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.25 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 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 46 55 0.03232523 0.03858805 0.03615341 3 -17.378125 277.4695 3 4 56 65 0.03928356 0.04554630 0.04311091 3 12.103695 131.4628 5 3 75 83 0.05389583 0.05946351 0.05876811 3 2.215321 211.7261 7 4 334 343 0.24106730 0.24733018 0.24489399 2 12.142617 137.8430 8 2 344 353 0.24802561 0.25428845 0.25185293 2 -17.320422 282.0595 10 2 631 640 0.44968927 0.45605613 0.45357323 3 -17.297047 281.5217 11 4 641 650 0.45676852 0.46319115 0.46068769 3 12.152516 134.0396 12 3 651 660 0.46389821 0.47026094 0.46919464 3 2.293797 211.0435 14 4 914 922 0.65809010 0.66369792 0.66159543 2 12.198196 140.9297 15 2 923 931 0.66439815 0.67000220 0.66790030 2 -17.270071 276.4215 18 2 1212 1221 0.86698611 0.87328927 0.87083764 3 -17.155227 291.8875 19 4 1222 1231 0.87398958 0.88029563 0.87784228 3 12.290953 133.5926 20 3 1232 1241 0.88099630 0.88730023 0.88624914 3 2.425016 207.6232 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.166635 1.292825 -0.0027524168 1.20542682 0.006953208 4.639996 3 1.166535 1.292706 0.0033620015 0.69219538 0.009156589 2.426124 5 1.166281 1.292511 -0.0001417191 5.81494584 0.002900123 5.995029 7 1.166981 1.293262 0.0007368824 -0.29636164 0.002926068 3.109379 8 1.167155 1.293458 -0.0022074244 1.47829845 0.005969860 4.619236 10 1.171115 1.298058 -0.0017347402 -0.32368920 0.005265681 6.032438 11 1.171111 1.298071 0.0027636671 -0.01660635 0.008171484 2.316125 12 1.171294 1.298276 -0.0018862013 1.58257034 0.005092969 3.115283 14 1.174250 1.301523 -0.0010524094 -2.39757804 0.002571232 7.634042 15 1.174342 1.301691 0.0006466870 1.54486362 0.005587075 5.670961 18 1.178466 1.306237 -0.0010291595 1.99246916 0.004647981 15.992967 19 1.178398 1.306192 0.0023037865 0.25045768 0.007381712 1.707106 20 1.178549 1.306376 0.0005268158 -2.32215907 0.003511739 3.131217 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.828 co2l1 = 0.937 co2l0 = 0.007" [1] "co2l0 = -143.1 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "27 out of 205 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "178 out of 1198 1-min values rejected as stack air" [1] "178 out of 1198 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"