[1] "2025-04-30 01:06:01 MDT" [1] "1601" "160121" "d021" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160121a.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] "2025-04-30 01:06:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.902, ave o2scale2 = 0.797" [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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "63 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.902, ave o2scale2 = 0.797" [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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "63 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:06:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:06:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:06:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:06:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 63 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 28 row(s) with low FLSP" [1] "TEMP: 1345 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:06:26 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.947 co2off = 404.78 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 163 172 0.1248600 0.1311227 0.1286875 2 1.457648 373.8234 3 2 173 182 0.1318183 0.1380773 0.1356431 2 -21.285453 494.6059 6 2 455 464 0.3335391 0.3397981 0.3373640 3 -21.290945 493.0700 7 4 465 474 0.3404935 0.3467529 0.3443189 3 1.440000 378.0321 8 3 475 484 0.3474483 0.3537076 0.3526645 3 -12.128289 503.2001 10 4 755 764 0.5422367 0.5484965 0.5460621 2 1.510031 376.2994 11 2 765 774 0.5491920 0.5554514 0.5530172 2 -21.206938 492.7701 13 2 993 1002 0.7509256 0.7571868 0.7547508 3 -21.177727 494.8558 14 4 1003 1012 0.7578843 0.7641436 0.7617095 3 1.527531 376.6710 15 5 1013 1022 0.7648392 0.7710985 0.7700554 NA -11.407219 452.3522 16 3 1023 1031 0.7717941 0.7773587 0.7766631 3 -12.022098 481.7014 18 4 1288 1297 0.9596117 0.9658715 0.9634370 2 1.554852 378.2329 19 2 1298 1307 0.9665669 0.9728264 0.9703919 2 -21.144398 495.9937 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.103724 1.251068 0.0005058546 0.5503641 0.005026374 9.873121 3 1.103459 1.250626 -0.0006893378 1.9346193 0.005924257 11.297831 6 1.105798 1.251384 -0.0004004691 1.7192127 0.001833602 12.917911 7 1.105649 1.251139 0.0020920487 7.1357896 0.006228714 18.877150 8 1.105768 1.251202 0.0016974472 7.4732224 0.006888942 9.684588 10 1.109589 1.254681 0.0027130402 -0.4013820 0.007350975 2.687114 11 1.109765 1.254872 -0.0008335065 1.3755680 0.002765984 4.666650 13 1.113372 1.258547 -0.0016493972 0.2146826 0.004482846 2.310209 14 1.113474 1.258631 0.0028620196 1.4180454 0.007483837 5.242117 15 1.113430 1.258666 -0.0050551279 3.5022797 0.003579728 5.048524 16 1.113853 1.258956 0.0005482040 6.4767443 0.004363356 6.530220 18 1.116121 1.262065 0.0008921481 0.5812533 0.002534128 2.771698 19 1.116194 1.262159 -0.0012443130 -0.9243444 0.003314258 3.103282 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.76 co2l1 = 0.947 co2l0 = 0.001" [1] "co2l0 = -195.91 co2l1 = 0.211" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 165 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "114 out of 1177 1-min values rejected as stack air" [1] "104 out of 946 Line 1 1-min values rejected as stack air" [1] "10 out of 231 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"