[1] "2025-04-29 21:14:00 MDT" [1] "1404" "140510" "d130" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140510a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85731 63 [1] 85731 [1] 85731 [1] "testing skipping spike filter" [1] 85731 [1] 85731 [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 21:14:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.738" [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] "30 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.738" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "32 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:14:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:14:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:14:16 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:14:18 MDT" [1] "reading in recalculated plot titles" [1] "Removed 32 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1395 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:14:22 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 = 0.414 co2off = 368.32 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.31 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Removed 2 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 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 172 181 0.1215402 0.1278079 0.1253669 2 75.346633 129.2928 1.228588 3 2 182 191 0.1285035 0.1347975 0.1323524 2 9.233367 270.7143 1.228457 5 2 469 478 0.3303087 0.3365729 0.3341356 3 8.986195 272.0111 1.230649 6 4 479 487 0.3372685 0.3428322 0.3407457 3 75.529750 131.1247 1.230817 8 3 496 504 0.3518773 0.3574491 0.3567535 3 52.742866 210.3648 1.231558 10 4 759 768 0.5390744 0.5453380 0.5429020 2 75.614023 132.8395 1.235198 11 2 769 775 0.5460336 0.5502102 0.5488185 2 8.809975 269.7439 1.235257 13 4 1042 1051 0.7475999 0.7538680 0.7514265 3 75.679937 128.5089 1.237628 14 2 1052 1061 0.7545635 0.7608264 0.7583897 3 8.660320 274.4768 1.237672 15 3 1062 1071 0.7615219 0.7677847 0.7667414 3 52.744477 209.0538 1.237592 17 2 1337 1346 0.9563508 0.9626135 0.9601796 2 8.845250 277.7760 1.237891 18 4 1347 1355 0.9633124 0.9688762 0.9667901 2 75.598795 131.4030 1.237521 jfcv2 co2slp o2slp co2sd o2sd 2 1.349875 -0.0006606644 -0.12066647 0.007689092 1.425446 3 1.349731 0.0025206274 -0.68931639 0.011197867 2.109741 5 1.352272 0.0006745167 -1.35779025 0.005777828 4.358735 6 1.352472 0.0076493686 1.32938254 0.021952986 3.799648 8 1.353136 0.0003233874 5.29615324 0.005402236 5.369847 10 1.357026 0.0002527093 -0.37928112 0.004386329 2.375654 11 1.357180 -0.0103797368 -1.64161282 0.020419841 2.686066 13 1.359803 0.0069709612 0.33610815 0.018252660 2.734982 14 1.359877 -0.0120894891 0.41665241 0.033124030 1.729057 15 1.359777 -0.0005527137 -1.78445480 0.006745115 3.102597 17 1.360054 -0.0071994132 -0.29527513 0.019288575 2.473332 18 1.359704 0.0072417030 0.07306475 0.021453156 1.831288 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.948 co2l1 = 0.414 co2l0 = -0.181" [1] "co2l0 = -142.94 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "36 out of 65 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "29 out of 1213 1-min values rejected as stack air" [1] "29 out of 1213 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"