[1] "2025-04-29 21:25:28 MDT" [1] "1406" "140701" "d182" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140701a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86100 63 [1] 86100 [1] 86100 [1] "testing skipping spike filter" [1] 86100 [1] 86100 [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 21:25:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.832, ave o2scale2 = 0.75" [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 = 0.832, ave o2scale2 = 0.75" [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 21:25:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:25:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:25:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:25:54 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:25:57 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 = -476.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 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 = 0.468 co2off = 367.77 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.75 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 8 0.001560301 0.006432465 0.004692347 2 49.534750 140.2996 2 3 9 18 0.007127865 0.013391146 0.012345566 2 29.471391 226.9378 4 4 289 298 0.201981481 0.208240741 0.205806753 2 49.282656 133.4774 5 2 299 308 0.208936343 0.215199132 0.212764902 2 -9.780195 281.6922 7 2 589 598 0.410949074 0.417211834 0.414776476 3 -9.984898 279.5871 8 4 599 608 0.417907465 0.424171152 0.421736390 3 49.044984 136.8121 9 5 609 618 0.424866753 0.431129398 0.430086169 NA 27.180875 193.6377 10 3 619 628 0.431825231 0.438087963 0.437044582 3 28.979539 220.0553 12 4 887 895 0.618821817 0.624702546 0.622509805 2 48.851580 133.8014 13 2 896 903 0.625402488 0.631013715 0.629270780 2 -10.159735 283.4272 15 2 1185 1194 0.827561343 0.833830006 0.831392484 3 -10.377781 281.6040 16 4 1195 1204 0.834530324 0.840796730 0.838359693 3 48.615266 133.2999 17 3 1205 1214 0.841493142 0.847763918 0.846718258 3 28.606836 221.9212 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.209125 1.342209 -0.0040529921 -5.6968152 0.007934399 15.832116 2 1.209040 1.342482 -0.0040378745 10.2865409 0.011129000 22.349463 4 1.203602 1.334866 -0.0041293667 1.0286790 0.012107591 6.224398 5 1.203699 1.335135 -0.0029910251 0.3072354 0.012544761 5.316188 7 1.202318 1.333657 -0.0029210394 1.8513516 0.012346058 5.910150 8 1.202296 1.333596 0.0006734263 -2.6444621 0.007862714 12.736478 9 1.202209 1.333488 -0.0162276869 -1.7909898 0.011490485 4.789514 10 1.202062 1.333227 -0.0021717529 6.5835325 0.006312450 8.701250 12 1.201591 1.332788 0.0003599677 0.8282472 0.011443630 3.682164 13 1.201864 1.333133 0.0009825197 0.3655540 0.005444897 1.609939 15 1.199354 1.330535 -0.0038721672 -0.2127854 0.010302782 3.601114 16 1.199093 1.330295 0.0063370191 -0.9519506 0.018211240 4.051668 17 1.199060 1.330255 -0.0015712398 4.6975598 0.005695583 6.179113 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.363 co2l1 = 0.466 co2l0 = 0.05" [1] "co2l0 = -142.58 co2l1 = 0.213" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "115 out of 185 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "70 out of 1267 1-min values rejected as stack air" [1] "70 out of 1267 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] "making html"