[1] "2025-04-30 02:35:37 MDT" [1] "1703" "170326" "d085" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170326a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 73260 63 [1] 73260 [1] 73260 [1] "testing skipping spike filter" [1] 73260 [1] 73260 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 02:35:40 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.063, ave o2scale2 = 0.851" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "57 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.063, ave o2scale2 = 0.851" [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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "57 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:35:40 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:35:40 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:35:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:35:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 57 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 2 row(s) with variable TFCELL" [1] "TEMP: 1161 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:35:55 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.562 co2off = 368.69 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.94 minutes" [1] "Average Cal: 7.6 minutes" [1] "Shortest Cal: 1.13 minutes" [1] "Longest Cal: 10.21 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 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 4 4 228 235 0.2532289 0.2587726 0.2567927 2 8.145719 140.8834 0.9406505 5 2 236 243 0.2595645 0.2651211 0.2631412 2 5.474396 305.2269 0.9406019 7 2 488 495 0.4612766 0.4667898 0.4648208 3 5.493177 307.7142 0.9411007 8 4 496 503 0.4675774 0.4730907 0.4711216 3 8.182083 152.5930 0.9409364 9 3 504 511 0.4738782 0.4793915 0.4789977 3 4.710281 302.8735 0.9409779 11 4 750 757 0.6694458 0.6749676 0.6729921 2 8.218771 152.5534 0.9413482 12 2 758 765 0.6757552 0.6812684 0.6792995 2 5.520667 313.2256 0.9414572 15 2 1013 1020 0.8775013 0.8830145 0.8810455 3 5.537948 319.1369 0.9398406 16 4 1021 1028 0.8838020 0.8893152 0.8873462 3 8.225646 146.0990 0.9399173 17 3 1029 1036 0.8901045 0.8956245 0.8952308 3 4.736083 284.7006 0.9399837 jfcv2 co2slp o2slp co2sd o2sd 4 1.174810 0.0024380358 0.306031 0.0053291284 18.562958 5 1.174800 0.0018978493 7.143249 0.0040682971 15.896590 7 1.175534 -0.0014469466 7.684115 0.0031398190 19.100338 8 1.175397 0.0024625169 5.256316 0.0052769645 12.023527 9 1.175466 0.0002220046 -2.924626 0.0009943198 2.345483 11 1.175958 -0.0005544348 3.198948 0.0027688746 12.891537 12 1.176054 -0.0012123436 4.781750 0.0032881574 12.231009 15 1.174659 -0.0007384503 2.102868 0.0017054218 10.380872 16 1.174677 0.0010265956 4.336823 0.0026054830 10.476882 17 1.174718 -0.0005888731 -8.642396 0.0030237773 6.930493 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 371.94 co2l1 = 4.528 co2l0 = 0.253" [1] "co2l0 = -158.04 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 232 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "167 out of 997 1-min values rejected as stack air" [1] "167 out of 997 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"