[1] "2025-04-30 03:15:45 MDT" [1] "1706" "170807" "d219" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170807a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 71102 63 [1] 71102 [1] 71102 [1] "testing skipping spike filter" [1] 71102 [1] 71102 [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 03:15:48 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.906" [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] "18 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.906" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "18 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:15:48 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:15:48 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:16:07 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:16:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 19 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1166 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:16:13 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 = 4.552 co2off = 419.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 8.2 minutes" [1] "Shortest Cal: 8.19 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 1 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 2 4 42 50 0.03013189 0.03583426 0.03369286 2 -1.882071 174.6555 3 2 51 59 0.03654583 0.04223521 0.04010157 2 -4.558857 336.2109 5 2 329 337 0.23798895 0.24367925 0.24154467 3 -4.572125 328.6432 6 4 338 344 0.24439068 0.25009054 0.24866781 3 -1.892800 174.2256 7 3 345 353 0.25080223 0.25649951 0.25578570 3 -5.358429 314.8889 9 4 609 617 0.44580810 0.45149878 0.44936458 2 -1.898473 169.8412 10 2 618 626 0.45221007 0.45790697 0.45577064 2 -4.589759 331.6183 13 2 900 908 0.65360205 0.65929337 0.65715993 3 -4.614071 330.1541 14 4 909 917 0.66000477 0.66570148 0.66356161 3 -1.920937 173.2177 15 3 918 926 0.66641256 0.67210119 0.67139026 3 -5.393339 311.2016 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.198711 1.109171 1.662276e-03 -0.5721218 0.0037410359 1.986951 3 1.198858 1.109224 8.456659e-04 1.3894718 0.0020186998 4.313406 5 1.197939 1.108146 -4.795378e-05 1.7085120 0.0003145764 6.185192 6 1.197688 1.107801 1.763404e-03 0.6171059 0.0028897042 2.298879 7 1.197934 1.108194 2.291199e-04 3.4600023 0.0015101344 3.601948 9 1.193635 1.103763 3.333710e-04 -0.7502707 0.0021086556 3.093500 10 1.193682 1.103720 -1.435699e-03 3.1226104 0.0032253530 8.589994 13 1.190838 1.101159 -9.808409e-05 3.8000524 0.0010821880 10.438396 14 1.190637 1.100881 3.870202e-04 -0.1222471 0.0014505746 5.256879 15 1.190435 1.100803 1.009349e-03 -9.6789250 0.0023014537 9.926961 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 417.65 co2l1 = 4.535 co2l0 = -0.049" [1] "co2l0 = -164.75 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "35 out of 35 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1022 1-min values rejected as stack air" [1] "0 out of 1022 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"