[1] "2025-04-29 21:12:46 MDT" [1] "1404" "140507" "d127" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140507a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86087 63 [1] 86087 [1] 86087 [1] "testing skipping spike filter" [1] 86087 [1] 86087 [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 21:12:50 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.733" [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] "33 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.733" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "34 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:12:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:12:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:12:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:13:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 34 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1398 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:13:03 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 = -476.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [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 = 0.409 co2off = 377.8 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.39 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 3 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 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 192 201 0.1423362 0.1485996 0.1461650 2 75.198930 132.6706 1.229736 3 2 202 210 0.1492951 0.1548624 0.1527762 2 8.709089 275.8672 1.230168 6 2 488 497 0.3511019 0.3573649 0.3549278 3 8.485508 275.0177 1.239312 7 4 498 507 0.3580602 0.3643231 0.3618869 3 75.582219 130.4646 1.239414 8 3 508 517 0.3650185 0.3712859 0.3702425 3 52.547148 212.7379 1.239723 10 4 788 797 0.5598753 0.5661389 0.5637030 2 75.843602 130.7140 1.245409 11 2 798 807 0.5668345 0.5730973 0.5706624 2 8.191344 275.3581 1.245643 13 2 1086 1095 0.7686076 0.7748710 0.7724364 3 8.172820 273.2514 1.250227 14 4 1096 1104 0.7755695 0.7811367 0.7790475 3 75.988866 113.0300 1.250147 16 3 1113 1121 0.7901817 0.7957489 0.7950535 3 52.711545 215.2849 1.250251 18 3 1153 1161 0.8248785 0.8311413 0.8304460 3 52.775234 206.0041 1.250622 19 2 1162 1171 0.8318368 0.8380998 0.8356653 3 8.150664 282.5911 1.250797 20 4 1172 1180 0.8387952 0.8443595 0.8422731 3 76.029393 130.6796 1.250847 jfcv2 co2slp o2slp co2sd o2sd 2 1.351771 0.004771577 0.87642481 0.012221790 2.817627 3 1.352299 -0.014613419 1.35308564 0.032549219 3.331164 6 1.362036 -0.005056390 2.62522358 0.014172937 6.693817 7 1.362136 0.008806111 0.19709202 0.022943107 3.607310 8 1.362460 -0.004492872 -0.95689794 0.012657002 1.439578 10 1.368612 -0.007968204 -0.31475203 0.023172946 4.050344 11 1.368878 -0.009023116 2.08813064 0.024998370 5.286331 13 1.373630 0.006544401 -0.02526487 0.016918807 1.837131 14 1.373701 -0.002613349 6.05566665 0.016777125 16.802725 16 1.373670 -0.004698264 5.53445206 0.012016087 5.934364 18 1.374251 -0.002781358 6.20083347 0.009757074 11.971159 19 1.374313 -0.006101484 -0.60903091 0.017781346 9.494298 20 1.374353 0.011990202 0.52505698 0.029702446 5.145823 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.23 co2l1 = 0.41 co2l0 = -0.19" [1] "co2l0 = -140.89 co2l1 = 0.213" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "115 out of 335 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "220 out of 1182 1-min values rejected as stack air" [1] "220 out of 1182 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"