[1] "2025-04-29 22:20:49 MDT" [1] "1410" "141104" "d308" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141104a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85560 63 [1] 85560 [1] 85560 [1] "testing skipping spike filter" [1] 85560 [1] 85560 [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 22:20:53 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.854, ave o2scale2 = 0.769" [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] "37 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.854, ave o2scale2 = 0.769" [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] "36 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:20:54 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:20:54 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:21:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:21:15 MDT" [1] "reading in recalculated plot titles" [1] "Removed 36 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1389 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:21:21 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 = 0.944 co2off = 395.5 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 8.56 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 11.64 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 3 [3,] 4 4 [4,] 5 6 [5,] 7 9 [6,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 165 173 0.1165335 0.1221007 0.1200127 2 3.417018 384.3745 4 2 174 182 0.1227964 0.1283636 0.1262751 2 -25.843714 531.6221 6 2 461 469 0.3253009 0.3313238 0.3288719 1 -25.823170 523.3325 9 3 487 494 0.3515360 0.3581474 0.3577368 1 -6.360719 444.6139 11 4 743 751 0.5342323 0.5397998 0.5377123 2 3.458080 383.7809 12 2 752 760 0.5404954 0.5460625 0.5439755 2 -25.789241 529.9313 14 2 1036 1043 0.7429927 0.7485596 0.7468210 3 -25.770784 524.2556 15 4 1044 1053 0.7492572 0.7555183 0.7530840 3 3.490617 382.7053 16 3 1054 1062 0.7562136 0.7617812 0.7610856 3 -6.299813 462.0229 19 4 1323 1331 0.9517530 0.9573204 0.9552333 2 3.553920 385.3455 20 2 1332 1340 0.9580158 0.9635833 0.9614965 2 -25.696339 526.7575 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.164522 1.292371 0.0023617441 1.4248752 0.005658778 4.463276 4 1.164623 1.292673 -0.0029178461 1.6673477 0.008607535 3.780433 6 1.167780 1.296217 0.0005137354 0.5013536 0.002848545 8.030783 9 1.168139 1.296732 -0.0003463586 -4.7295015 0.001320955 3.954451 11 1.171370 1.300209 0.0001809245 -0.3250329 0.002720178 5.418256 12 1.171550 1.300695 0.0013268303 0.7342906 0.004523151 6.782968 14 1.176150 1.305742 0.0004110063 1.1947616 0.002535016 3.782828 15 1.176422 1.306047 0.0030007020 -1.1807253 0.008261993 3.845504 16 1.176660 1.306522 -0.0012116615 1.3675488 0.003186479 1.720585 19 1.181891 1.312333 -0.0034495940 1.4641860 0.007953127 5.571903 20 1.182064 1.312687 -0.0008495145 -0.2501466 0.005842982 1.439075 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.964 co2l1 = 0.944 co2l0 = 0" [1] "co2l0 = -197.22 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "97 out of 324 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "227 out of 1209 1-min values rejected as stack air" [1] "201 out of 1094 Line 1 1-min values rejected as stack air" [1] "26 out of 115 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"