[1] "2025-04-29 20:29:03 MDT" [1] "1401" "140205" "d036" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140205a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:29:07 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.74" [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] "22 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.74" [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] "22 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:29:08 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:29:08 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:29:25 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:29:27 MDT" [1] "reading in recalculated plot titles" [1] "Removed 22 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1414 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:29:33 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.8" [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 = 0.459 co2off = 383.57 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 7.02 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,] 5 7 [4,] 8 9 [5,] 10 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 3 1 8 0.001396354 0.006268519 0.005920718 1 35.476896 249.3825 5 4 268 277 0.194109954 0.200373061 0.197936176 2 56.131070 160.0297 6 2 278 287 0.201068374 0.207327633 0.204893649 2 -4.047750 300.3927 7 5 288 297 0.208023177 0.214282610 0.213239598 NA 31.158062 224.9990 9 2 566 575 0.402799769 0.409059462 0.406625365 3 -3.775750 297.9520 10 4 576 584 0.409754861 0.415318750 0.413232399 3 56.090464 155.8746 11 3 585 593 0.417405700 0.422969560 0.422274142 3 35.613330 245.0622 13 4 864 873 0.611488773 0.617747946 0.615313831 2 56.165555 160.3145 14 2 874 883 0.618448727 0.624707581 0.622273568 2 -4.366461 302.0078 16 2 1156 1165 0.820191291 0.826454398 0.824019300 3 -4.210172 299.5441 17 4 1166 1175 0.827149769 0.833409317 0.830975076 3 56.153438 156.3704 18 5 1176 1185 0.834104659 0.840367824 0.839324602 NA 31.100281 219.3175 19 3 1186 1195 0.841063252 0.847322917 0.846279565 3 35.442531 242.4946 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.232447 1.355052 0.005723831 7.6476279 0.011306433 5.416702 5 1.232416 1.354989 0.002562880 2.4425017 0.010208782 6.501504 6 1.232432 1.355030 -0.007373485 0.9717768 0.019423729 5.178545 7 1.232209 1.354777 -0.033329172 -0.5658062 0.023599689 0.831302 9 1.231077 1.353595 0.005687944 2.3950154 0.016064984 8.908842 10 1.230957 1.353452 0.007357729 -1.7093037 0.019318326 20.907561 11 1.230696 1.353103 -0.005921984 0.6184437 0.014836290 1.928035 13 1.230310 1.352735 0.001180737 3.5801305 0.007175140 9.828701 14 1.230499 1.352952 -0.006461397 1.2198716 0.016729129 4.243150 16 1.227578 1.347299 -0.002429962 3.6234683 0.007574684 11.327198 17 1.227385 1.347108 0.005191427 2.8217523 0.020355545 9.131409 18 1.227280 1.346939 -0.028274800 -5.9553066 0.020019961 9.110672 19 1.227194 1.346888 -0.004779305 1.2389969 0.012299735 1.685231 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.559 co2l1 = 0.459 co2l0 = 0.008" [1] "co2l0 = -149.99 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "116 out of 430 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "314 out of 1229 1-min values rejected as stack air" [1] "256 out of 965 Line 1 1-min values rejected as stack air" [1] "58 out of 264 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"