[1] "2025-04-30 02:26:38 MDT" [1] "1702" "170305" "d064" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170305a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84420 63 [1] 84420 [1] 84420 [1] "testing skipping spike filter" [1] 84420 [1] 84420 [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 02:26:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.049, ave o2scale2 = 0.847" [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 0 MR FC 2 jog(s) with SP SD > 1000" [1] "76 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.049, ave o2scale2 = 0.847" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "78 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:26:43 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:26:43 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:26:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:26:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 78 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1328 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:27:01 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -647.9" [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 = 0.984 co2off = 374.91 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.18 minutes" [1] "Average Cal: 8.18 minutes" [1] "Shortest Cal: 8.18 minutes" [1] "Longest Cal: 8.2 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 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 58 66 0.04311256 0.04880663 0.04666825 2 41.40410 201.0032 3 2 67 75 0.04951649 0.05519485 0.05306583 2 19.47966 317.7937 6 2 348 356 0.25133892 0.25702025 0.25488883 3 19.26571 321.7936 7 4 357 365 0.25773142 0.26341024 0.26128038 3 41.22336 194.8849 8 3 366 374 0.26412037 0.26980197 0.26909214 3 28.11346 302.0507 10 4 641 649 0.45947561 0.46515648 0.46302587 2 41.13929 200.0195 11 2 650 658 0.46586655 0.47154910 0.46941921 2 19.20461 320.1597 13 2 928 936 0.66763707 0.67331785 0.67118751 3 19.39650 315.6865 14 4 937 945 0.67402818 0.67971299 0.67758089 3 41.35557 203.4976 16 3 955 963 0.68681374 0.69249387 0.69178393 3 28.19941 295.7207 18 2 1194 1202 0.88217639 0.88786102 0.88572698 1 19.43313 287.5697 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9496118 1.172504 -0.0047977902 -0.10074294 0.011060726 3.473839 3 0.9498552 1.172728 -0.0027234193 0.05198577 0.007003427 2.929055 6 0.9524213 1.175603 -0.0066747739 -0.32999945 0.015249482 4.960571 7 0.9523877 1.175621 0.0090259990 -2.12758689 0.020945325 8.286441 8 0.9525878 1.175667 0.0007704206 -4.42966639 0.004131286 4.560620 10 0.9542436 1.178031 0.0053589468 -0.56653782 0.013427897 6.834105 11 0.9543814 1.178141 -0.0010436227 -0.27205945 0.014020154 1.653159 13 0.9547700 1.179218 -0.0015302389 -0.84450961 0.006684384 1.935976 14 0.9546861 1.179262 -0.0051869930 -2.12663075 0.013111721 7.333918 16 0.9547068 1.179445 -0.0080494330 -1.09597719 0.018406395 1.778464 18 0.9543753 1.207633 -0.0046017449 -7.18173637 0.010779272 25.319701 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 365.709 co2l1 = 0.98 co2l0 = 0.064" [1] "co2l0 = -159.02 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "251 out of 475 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "224 out of 1159 1-min values rejected as stack air" [1] "224 out of 1159 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"