[1] "2025-04-29 21:29:02 MDT" [1] "1406" "140707" "d188" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140707a.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 21:29:06 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.756" [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] "10 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.756" [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] "10 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:29:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:29:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:29:26 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:29:27 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 760 row(s) with low FLSP" [1] "TEMP: 665 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:29:31 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 0.471 co2off = 383.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.81 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.04985483 0.05542251 0.05333270 2 43.10688 138.9273 2 2 10 19 0.05611806 0.06237734 0.05994324 2 -15.59692 283.3103 4 2 29 38 0.25788657 0.26414583 0.26171164 3 -15.66198 281.1355 5 4 39 48 0.26484132 0.27112914 0.26868854 3 43.05392 134.4440 6 3 49 58 0.27182448 0.27808767 0.27704447 3 23.15259 210.3082 7 4 59 68 0.46669065 0.47295023 0.47051566 2 42.96931 142.7534 8 2 69 77 0.47364575 0.47921296 0.47712397 2 -15.69880 282.2039 10 2 199 208 0.67548247 0.68174537 0.67931109 3 -15.62748 276.6391 11 4 209 218 0.68244459 0.68870804 0.68627088 3 43.06221 131.0210 12 5 219 228 0.68940324 0.69567277 0.69462944 NA 20.48656 208.3257 13 3 229 238 0.69636921 0.70262850 0.70158532 3 23.17907 215.3106 15 4 499 508 0.88422804 0.89049141 0.88805664 2 43.08783 137.9611 16 2 509 518 0.89118681 0.89744676 0.89501212 2 -15.58730 277.4219 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.186438 1.317760 -0.0013309066 -0.0306000 0.005665644 1.149346 2 1.186627 1.317962 -0.0002986783 1.2613441 0.008249442 4.252158 4 1.187142 1.318482 -0.0029630620 -0.1332438 0.007339484 2.846230 5 1.187161 1.318508 0.0034594795 0.8583621 0.015462070 5.277178 6 1.187597 1.319022 -0.0019508784 2.8830686 0.007080295 3.760178 7 1.188451 1.319930 0.0030663412 -0.4922214 0.012321810 8.818706 8 1.188513 1.319936 -0.0030867349 0.4503799 0.009868697 2.648059 10 1.196042 1.328337 0.0020417308 -0.8187572 0.007074204 7.781888 11 1.196093 1.328333 0.0037658254 5.1351242 0.012230758 13.943705 12 1.196287 1.328614 -0.0140991516 -0.4309329 0.009987883 4.047399 13 1.196372 1.328679 0.0020439021 5.1016991 0.011128733 9.515633 15 1.201054 1.333930 0.0028390570 -0.8086252 0.008864666 2.938655 16 1.201273 1.334168 -0.0028011758 0.9158900 0.009290418 2.595464 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.988 co2l1 = 0.47 co2l0 = 0.069" [1] "co2l0 = -144.16 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "15 out of 15 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 508 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 508 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"