[1] "2025-04-29 22:19:17 MDT" [1] "1410" "141101" "d305" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141101a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84735 63 [1] 84735 [1] 84735 [1] "testing skipping spike filter" [1] 84735 [1] 84735 [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 22:19:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.752" [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] "253 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.752" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "253 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:19:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:19:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:19:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:19:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 253 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 8 row(s) with variable TFCELL" [1] "TEMP: 1149 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:19:37 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.945 co2off = 405.38 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 6.81 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Removed 1 anomalous calibration row(s)" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 7 [4,] 8 9 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 118 126 0.1025169 0.1080845 0.1059980 2 -24.972321 525.0053 3 4 127 135 0.1087801 0.1150405 0.1127550 2 4.251150 379.6361 7 4 343 349 0.3105946 0.3147708 0.3133783 2 4.149462 383.2705 8 2 350 358 0.3175526 0.3231201 0.3210318 2 -25.109821 525.1344 10 2 525 534 0.5193959 0.5256592 0.5232239 3 -25.030188 526.1207 11 4 535 543 0.5263546 0.5326181 0.5305285 3 4.201084 383.3552 12 3 544 553 0.5333137 0.5395764 0.5385304 3 -5.599609 469.7601 14 4 822 830 0.7288342 0.7344016 0.7323153 2 4.134125 383.0454 15 2 831 840 0.7351000 0.7413646 0.7389274 2 -25.095016 528.4271 16 5 841 850 0.7420601 0.7483229 0.7472790 NA -7.130688 440.0767 19 4 921 925 0.8340313 0.8368171 0.8361202 1 4.076500 367.7484 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.200688 1.331470 -0.0030958311 -0.3392776 0.006996039 2.019609 3 1.200195 1.330983 -0.0002797523 0.2722880 0.006869529 5.125563 7 1.193558 1.323763 0.0026985564 -2.2046359 0.005148877 4.339756 8 1.192557 1.322598 -0.0041006307 -1.2160587 0.010057609 5.697351 10 1.202218 1.333327 0.0001915296 -0.6192851 0.002063717 2.985046 11 1.201879 1.332903 0.0012034140 -1.7685783 0.004227209 5.849255 12 1.201808 1.332870 -0.0028528466 3.9503812 0.007343057 5.553674 14 1.201985 1.333082 -0.0005171491 -1.2384913 0.001566661 3.038196 15 1.202005 1.333192 -0.0012196581 -0.5328403 0.004919639 2.550206 16 1.201906 1.333039 -0.0081118183 -1.2791972 0.005745243 2.097447 19 1.199140 1.331431 0.0043283950 -8.9634598 0.005033870 9.030122 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.303 co2l1 = 0.944 co2l0 = 0.002" [1] "co2l0 = -198.08 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "56 out of 80 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "24 out of 968 1-min values rejected as stack air" [1] "24 out of 968 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"