[1] "2025-04-30 03:19:55 MDT" [1] "1707" "170816" "d228" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170816a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 03:19:59 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.877, ave o2scale2 = 1.007" [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] "23 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.877, ave o2scale2 = 1.007" [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] "25 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:19:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:19:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:20:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:20:21 MDT" [1] "reading in recalculated plot titles" [1] "Removed 25 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1379 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:20:24 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 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 CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.454 co2off = 419.73 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 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 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 21 29 0.01630049 0.02199777 0.01986354 2 -2.444330 169.1572 3 2 30 38 0.02270909 0.02841024 0.02626595 2 -5.195536 327.0107 5 2 314 322 0.22480223 0.23049722 0.22836110 3 -5.169518 328.4510 6 4 323 331 0.23120813 0.23689444 0.23476203 3 -2.420473 164.8991 8 3 341 349 0.24401377 0.24970946 0.24899510 3 -5.998821 308.1665 10 4 593 601 0.43265781 0.43836036 0.43621580 2 -2.412036 170.7029 11 2 602 610 0.43907156 0.44476256 0.44262859 2 -5.154884 329.0296 13 2 882 890 0.64069682 0.64638782 0.64425331 3 -5.185375 326.3417 14 4 891 899 0.64709925 0.65279719 0.65066267 3 -2.452420 166.6733 15 3 900 908 0.65350885 0.65920628 0.65849116 3 -6.045384 313.6513 17 4 1170 1178 0.84859083 0.85428192 0.85214742 2 -2.358134 164.0575 18 2 1179 1187 0.85499369 0.86069161 0.85855471 2 -5.115643 335.6020 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.137773 0.9926751 -0.0003115103 1.7506287 0.001351944 6.7137295 3 1.137756 0.9925160 0.0008552985 2.2772613 0.002114206 5.6696971 5 1.138043 0.9919396 -0.0007787423 1.5145495 0.002330089 7.3398297 6 1.138042 0.9919711 -0.0000261688 2.1839933 0.000425210 7.8145316 8 1.137969 0.9919131 0.0002031414 0.5612011 0.001448072 0.5870148 10 1.139000 0.9927338 0.0008456726 0.8450402 0.002017133 3.8267125 11 1.139103 0.9928045 0.0007713799 2.2764198 0.001728826 5.9950879 13 1.141070 0.9935097 -0.0018563095 0.8511224 0.004161768 7.5466953 14 1.141044 0.9935615 -0.0023245904 -0.1637456 0.005219993 1.7246929 15 1.141307 0.9937728 -0.0022386785 2.1061288 0.005226563 3.4193278 17 1.143043 0.9949046 -0.0006013870 4.2070787 0.001990023 12.4581571 18 1.143176 0.9950890 -0.0012373843 3.1782466 0.002790123 11.3321912 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 419.704 co2l1 = 4.416 co2l0 = 0.924" [1] "co2l0 = -162.6 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 170 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "119 out of 1201 1-min values rejected as stack air" [1] "119 out of 1201 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] "making html"