[1] "2025-04-29 20:15:56 MDT" [1] "1401" "140115" "d015" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140115a.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] "2025-04-29 20:16:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.74" [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] "34 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.74" [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] "34 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:16:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:16:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:16:17 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:16:18 MDT" [1] "reading in recalculated plot titles" [1] "Removed 34 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1401 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:16:24 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.458 co2off = 379.25 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.81 minutes" [1] "Shortest Cal: 7.09 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 185 194 0.1458288 0.1520924 0.1496581 3 -5.028992 305.1385 1.222465 3 4 195 204 0.1527878 0.1590507 0.1566160 3 54.996789 156.8589 1.222449 4 3 205 213 0.1604415 0.1660058 0.1653102 3 34.483866 240.8701 1.222559 6 4 484 493 0.3545371 0.3608006 0.3583627 2 55.009414 158.0214 1.225465 7 2 494 503 0.3614960 0.3677592 0.3653226 2 -5.127758 302.5627 1.225596 9 2 780 789 0.5632235 0.5694829 0.5670486 3 -5.273906 301.0246 1.228138 10 4 790 799 0.5701788 0.5764377 0.5740037 3 55.001438 158.4130 1.228056 11 5 800 809 0.5771332 0.5833927 0.5823497 NA 29.964562 221.5118 1.228131 12 3 810 819 0.5840926 0.5903517 0.5893084 3 34.420187 234.1401 1.228095 14 4 1076 1085 0.7719236 0.7781871 0.7757492 2 55.109578 156.9741 1.231262 15 2 1086 1095 0.7788820 0.7851448 0.7827091 2 -5.768031 299.3877 1.231386 17 2 1374 1383 0.9806088 0.9868687 0.9844344 3 -6.143922 302.8869 1.234228 18 4 1384 1393 0.9875641 0.9938427 0.9913974 3 55.066070 159.2916 1.234140 19 3 1394 1401 0.9945382 0.9994618 0.9991140 3 34.127542 240.3163 1.234172 jfcv2 co2slp o2slp co2sd o2sd 2 1.345345 0.0070137534 2.9179276 0.019551142 7.630181 3 1.345347 0.0006862914 1.8047134 0.011785941 4.636656 4 1.345641 -0.0017493592 0.4384206 0.007534420 2.131347 6 1.348505 0.0017120055 0.1553767 0.006656423 4.268607 7 1.348643 -0.0002927587 3.5161325 0.008400111 9.995038 9 1.351485 0.0028113397 -0.3953037 0.011119983 6.071933 10 1.351413 0.0031799582 1.2046178 0.009127262 8.188946 11 1.351486 -0.0378261412 -2.9014944 0.026781669 4.670690 12 1.351428 0.0036908453 3.1017855 0.009524873 5.624323 14 1.354767 -0.0011289711 -0.3927678 0.008010160 3.770698 15 1.354945 0.0052450665 3.6495024 0.014781104 9.684747 17 1.357789 0.0079026229 5.1156692 0.019978329 13.107973 18 1.357707 0.0056421113 3.0398446 0.018403265 7.984556 19 1.357747 0.0013777990 5.2595013 0.005559292 3.725227 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.138 co2l1 = 0.457 co2l0 = 0.025" [1] "co2l0 = -148.53 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "76 out of 235 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "159 out of 1232 1-min values rejected as stack air" [1] "159 out of 1232 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"