[1] "2025-04-29 22:36:30 MDT" [1] "1411" "141208" "d342" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141208a.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 22:36:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.85, ave o2scale2 = 0.767" [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 = 0.85, ave o2scale2 = 0.767" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:36:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:36:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:36:55 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:36:56 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1433 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:37:03 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 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635" [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 = 395.55 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 128 137 0.08996181 0.09622167 0.09378745 2 3.457102 384.8233 3 2 138 147 0.09691707 0.10317674 0.10074243 2 -25.815227 528.8038 5 2 428 437 0.29870090 0.30496004 0.30252594 3 -25.851437 528.0303 6 4 438 447 0.30565674 0.31191910 0.30948443 3 3.432828 387.0944 7 5 448 457 0.31262196 0.31888513 0.31784192 NA -7.603656 433.1424 8 3 458 467 0.31958041 0.32584329 0.32479967 3 -6.380898 462.6155 10 4 728 737 0.50752219 0.51378553 0.51134932 2 3.447797 384.8073 11 2 738 747 0.51448087 0.52073967 0.51830578 2 -25.815508 522.9496 13 2 1028 1037 0.71618981 0.72245255 0.72001599 3 -25.835273 525.3675 14 4 1038 1047 0.72314815 0.72941091 0.72697389 3 3.426008 379.1797 15 3 1048 1057 0.73010651 0.73636641 0.73532330 3 -6.399555 466.2467 17 4 1327 1336 0.92489578 0.93115509 0.92872080 2 3.481305 381.9476 18 2 1337 1345 0.93185069 0.93811343 0.93552751 2 -25.790191 530.1435 19 5 1346 1355 0.93880900 0.94507176 0.94402854 NA -7.570281 443.6840 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.177049 1.304000 0.0009086165 -0.005814038 0.004267942 2.622861 3 1.177046 1.304009 -0.0019960717 0.031191099 0.006712939 3.494088 5 1.176083 1.302996 0.0013402124 1.982809392 0.003736284 5.515720 6 1.175939 1.302833 0.0016074650 0.789650854 0.005862901 2.317100 7 1.176015 1.302914 -0.0034327799 -11.312884592 0.002430680 15.458058 8 1.176148 1.303116 -0.0019336479 -0.729407612 0.005221322 1.346802 10 1.176447 1.303419 -0.0006589510 -0.951457280 0.002370002 4.405002 11 1.176405 1.303409 -0.0029593152 -1.455953444 0.007990608 4.046893 13 1.177521 1.304704 -0.0010218912 -1.472731008 0.002786875 6.033998 14 1.177419 1.304617 -0.0012843797 -1.121870769 0.006706743 4.069535 15 1.177347 1.304572 -0.0019769207 0.969238387 0.005339839 2.692896 17 1.179237 1.306568 0.0002949225 0.016636304 0.001471241 2.446917 18 1.179127 1.306547 -0.0034038168 0.949442844 0.009819715 3.392451 19 1.179134 1.306450 -0.0066766504 0.445576925 0.004728777 1.532704 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.985 co2l1 = 0.943 co2l0 = 0.001" [1] "co2l0 = -198.94 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "46 out of 320 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "274 out of 1242 1-min values rejected as stack air" [1] "274 out of 1242 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"