[1] "2025-04-29 20:13:51 MDT" [1] "1401" "140111" "d011" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140111a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85614 63 [1] 85614 [1] 85614 [1] "testing skipping spike filter" [1] 85614 [1] 85614 [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 20:13:55 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.734" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "48 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.734" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with SP SD > 1000" [1] "50 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:13:56 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:13:56 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:14:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:14:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 50 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1375 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:14:08 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 = -475.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.448 co2off = 374.45 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.42 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.02 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 9 [4,] 10 11 [5,] 12 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 20 29 0.01526539 0.02152894 0.01909260 3 -6.409039 297.7176 3 4 30 39 0.02222451 0.02848614 0.02605144 3 56.491969 160.5278 4 3 40 49 0.02918171 0.03544097 0.03439777 3 34.982305 234.9300 6 4 318 327 0.22394725 0.23020634 0.22777234 2 56.361273 149.7639 7 2 328 337 0.23090177 0.23716513 0.23473079 2 -5.028289 298.8827 9 2 617 626 0.43266421 0.43892708 0.43649307 3 -5.532531 299.5055 10 4 627 636 0.43962269 0.44588542 0.44345111 3 56.263742 155.6645 11 5 637 646 0.44658105 0.45284427 0.45180116 NA 30.008063 215.4509 12 3 647 656 0.45353958 0.45980318 0.45875982 3 35.157047 225.7663 14 4 914 923 0.64136878 0.64762896 0.64519441 2 56.109500 156.0104 15 2 924 933 0.64832428 0.65458345 0.65214942 2 -5.507109 295.6181 19 4 1134 1143 0.82025402 0.82651389 0.82407922 1 55.965250 161.4844 20 5 1144 1153 0.82720998 0.83347436 0.83242907 NA 30.138875 212.2414 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.250477 1.372318 -0.0046342762 -0.2345685 0.012587947 5.214840 3 1.250367 1.372160 0.0106473584 2.8009097 0.029019409 9.111121 4 1.250406 1.372190 0.0058378434 1.1562790 0.014608562 2.360164 6 1.247981 1.369763 0.0006130819 1.3300133 0.006876294 5.689936 7 1.247943 1.369721 0.0123577335 3.9808579 0.032664965 10.717022 9 1.244692 1.366494 -0.0109787951 1.9556604 0.027096862 5.201067 10 1.244593 1.366375 0.0111421768 0.2089222 0.031638362 4.006419 11 1.244617 1.366371 -0.0518037698 -3.2130393 0.036681164 5.259537 12 1.244680 1.366375 0.0036636971 0.6885958 0.018358677 2.045790 14 1.239087 1.360415 0.0028073598 3.1797574 0.010087784 7.980365 15 1.239113 1.360428 -0.0020345592 2.7719005 0.011098320 8.568632 19 1.231075 1.352495 -0.0046991562 0.3564725 0.013790808 12.740957 20 1.230718 1.352045 -0.0509278522 -2.7513362 0.036062446 7.409392 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.141 co2l1 = 0.446 co2l0 = 0.027" [1] "co2l0 = -148.51 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "47 out of 125 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "78 out of 1183 1-min values rejected as stack air" [1] "78 out of 1183 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"