[1] "2025-04-29 21:27:53 MDT" [1] "1406" "140705" "d186" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140705a.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 21:27:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 3 MR FC 2 jog(s) with SP SD > 1000" [1] "7 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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 3 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 4 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 21:27:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:27:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:28:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:28:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 685 row(s) with low FLSP" [1] "TEMP: 741 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:28:24 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 = 404.22 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 = 0.471 co2off = 383.15 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.85 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 243 252 0.1704225 0.1766852 0.1742488 3 -13.50930 278.7196 1.220673 3 4 253 262 0.1773808 0.1836407 0.1812060 3 45.32077 145.6339 1.220666 4 5 263 272 0.1843359 0.1905995 0.1895550 NA 22.75375 192.9202 1.219646 5 3 273 282 0.1912951 0.1975545 0.1965112 3 25.33317 223.0396 1.219703 7 4 543 552 0.3791918 0.3854548 0.3830195 2 44.97906 134.8320 1.207052 8 2 553 562 0.3861503 0.3924132 0.3899786 2 -13.86209 282.0318 1.205631 10 2 684 692 0.5887627 0.5943327 0.5922452 3 -14.25522 278.5836 1.199510 11 4 693 702 0.5950298 0.6013166 0.5988617 3 44.55567 133.0045 1.199126 12 3 703 712 0.6020126 0.6082760 0.6072319 3 24.64421 207.6968 1.198706 13 4 713 721 0.7975743 0.8031424 0.8010531 2 44.34854 138.9110 1.192583 14 2 722 731 0.8038380 0.8101015 0.8076651 2 -14.49403 279.7738 1.193108 15 5 732 741 0.8107968 0.8170599 0.8160167 NA 23.48278 201.9762 1.192849 jfcv2 co2slp o2slp co2sd o2sd 2 1.349664 -0.010666404 -3.1318651 0.027775757 11.320209 3 1.349865 0.001765863 4.8080366 0.013941073 19.557956 4 1.348824 0.040938592 5.0732689 0.028991378 7.969916 5 1.348914 -0.005240374 1.0462602 0.014287808 7.341003 7 1.338419 -0.006172825 1.3639020 0.016180207 4.241488 8 1.336867 -0.004666652 2.9306389 0.015129351 8.653556 10 1.331049 -0.001828559 0.8307408 0.004980673 3.793385 11 1.330742 0.003485901 3.1588836 0.012627817 8.545577 12 1.330307 -0.002542795 -3.3869428 0.008081334 4.872065 13 1.323892 -0.016103806 2.4116019 0.035197040 6.971432 14 1.324485 -0.004691663 -1.8881265 0.013396470 6.108452 15 1.324202 -0.033268142 0.5974479 0.023555495 1.282829 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.222 co2l1 = 0.469 co2l0 = 0.061" [1] "co2l0 = -144.74 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "23 out of 101 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "78 out of 606 1-min values rejected as stack air" [1] "78 out of 606 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"