[1] "2025-04-30 00:52:37 MDT" [1] "1510" "151218" "d352" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151218a.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] "2025-04-30 00:52:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.776" [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] "2 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.878, ave o2scale2 = 0.776" [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 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "4 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:52:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:52:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:52:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:53:01 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:53:03 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1" [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 = 0.948 co2off = 403.21 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.1 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 46 55 0.03358793 0.03984722 0.03741288 2 3.228039 378.2429 3 2 56 65 0.04054300 0.04680214 0.04436821 2 -19.454328 493.7635 5 2 346 355 0.24226869 0.24852833 0.24609430 3 -19.509969 493.4655 6 4 356 365 0.24922396 0.25548351 0.25304918 3 3.177969 380.6265 7 3 366 375 0.25617891 0.26243773 0.26139474 3 -10.378375 486.3468 9 4 646 655 0.45100874 0.45726849 0.45483427 2 3.185117 377.5767 10 2 656 665 0.45796395 0.46422674 0.46179054 2 -19.513320 494.7247 12 2 946 955 0.65983359 0.66611762 0.66367394 3 -19.585102 491.0417 13 4 956 965 0.66681725 0.67312601 0.67066816 3 3.091344 379.0148 14 5 966 975 0.67382494 0.68014433 0.67907930 NA -9.844875 454.8205 15 3 976 985 0.68084887 0.68711305 0.68606871 3 -10.474430 478.8481 17 4 1246 1255 0.86875935 0.87501973 0.87258493 2 3.002008 381.3145 18 2 1256 1265 0.87571707 0.88197630 0.87954217 2 -19.704688 500.5416 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.147156 1.296929 0.0014003816 -0.20105310 0.003814174 1.9256093 3 1.147307 1.297090 -0.0001739502 1.50525134 0.004090733 5.8467144 5 1.144351 1.294116 0.0006225620 -1.03599879 0.004626327 4.5607741 6 1.144275 1.294023 0.0012940737 -0.27965871 0.005064539 3.0220107 7 1.144412 1.294101 0.0008544486 4.00277700 0.002895309 5.2624707 9 1.141660 1.290976 0.0003751141 -0.03105400 0.004287835 1.4615298 10 1.141550 1.290848 0.0002057904 0.31249823 0.002615296 0.9023385 12 1.136968 1.285958 -0.0011932374 0.08328722 0.003528256 3.2471735 13 1.136595 1.285573 0.0023570625 0.63041640 0.006665141 4.1470937 14 1.136251 1.285230 -0.0038361638 2.62012609 0.002828427 3.5489258 15 1.136079 1.285116 0.0008068169 1.39899970 0.002891729 2.7427501 17 1.130987 1.279481 -0.0024505300 1.29242374 0.006423176 3.4725432 18 1.130931 1.279424 -0.0029850232 2.87682008 0.007442788 7.5795504 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 403.208 co2l1 = 0.948 co2l0 = -0.005" [1] "co2l0 = -199.6 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "85 out of 225 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "140 out of 1265 1-min values rejected as stack air" [1] "140 out of 1265 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"