[1] "2025-04-29 20:48:03 MDT" [1] "1402" "140311" "d070" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140311a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 20:48:07 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.751" [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] "33 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.751" [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] "33 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:48:07 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:48:07 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:48:24 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:48:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 33 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1403 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:48:28 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.442 co2off = 370.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.6 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.03 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,] 4 5 [3,] 6 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 233 238 0.1675961 0.1724653 0.1707263 2 -5.181672 304.5553 1.214384 3 4 239 248 0.1745517 0.1808149 0.1783807 2 57.389937 163.8373 1.214399 4 5 249 258 0.1815114 0.1877753 0.1867319 NA 31.729688 225.2236 1.214243 7 4 526 535 0.3763110 0.3825706 0.3801362 2 57.414219 160.0936 1.212919 8 2 536 545 0.3832662 0.3895291 0.3870922 2 -5.210383 300.8143 1.213103 10 2 813 822 0.5849850 0.5912477 0.5888120 3 -5.110367 304.9037 1.212634 11 4 823 832 0.5919433 0.5982026 0.5957685 3 57.352680 161.6285 1.212319 12 3 833 842 0.5988982 0.6051574 0.6041141 3 35.968188 245.5204 1.212360 14 4 1107 1116 0.7936963 0.7999553 0.7975212 2 57.276250 160.6750 1.209077 15 2 1117 1126 0.8006531 0.8069140 0.8044799 2 -4.945359 301.3988 1.208954 16 5 1127 1136 0.8076094 0.8138784 0.8128324 NA 31.739438 225.7030 1.208704 jfcv2 co2slp o2slp co2sd o2sd 2 1.334498 0.0013379105 5.5346103 0.003683216 13.492490 3 1.334515 0.0077241907 0.9426109 0.019295054 4.573585 4 1.334348 -0.0445488956 3.3487764 0.031554640 4.444245 7 1.332951 -0.0001545728 2.4634963 0.003910979 6.897753 8 1.333163 -0.0010441575 1.6215119 0.005738579 4.826857 10 1.332691 0.0002906060 0.9164070 0.007668963 3.648513 11 1.332347 0.0029191598 0.9520794 0.010416410 3.916466 12 1.332398 -0.0056629737 1.2424164 0.016849683 1.885661 14 1.328883 -0.0003656229 1.3154329 0.007554711 3.542462 15 1.328753 0.0012599827 2.4633311 0.008646179 6.167884 16 1.328479 -0.0276835223 -0.2225307 0.019710602 1.123999 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.889 co2l1 = 0.442 co2l0 = 0.02" [1] "co2l0 = -150.09 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "133 out of 326 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "193 out of 1241 1-min values rejected as stack air" [1] "173 out of 1125 Line 1 1-min values rejected as stack air" [1] "20 out of 116 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"