[1] "2025-04-30 03:03:01 MDT" [1] "1704" "170527" "d147" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170527a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 66388 63 [1] 66388 [1] 66388 [1] "testing skipping spike filter" [1] 66388 [1] 66388 [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 03:03:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.881" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "115 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.881" [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] "114 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:03:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:03:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:03:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:03:16 MDT" [1] "reading in recalculated plot titles" [1] "Removed 115 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 989 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:03:18 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.519 co2off = 375.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.19 minutes" [1] "Average Cal: 7.84 minutes" [1] "Shortest Cal: 4.11 minutes" [1] "Longest Cal: 9.67 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 49 57 0.03510883 0.04079913 0.03866516 3 6.072723 338.1698 3 4 58 66 0.04151881 0.04720880 0.04507529 3 8.763580 170.0913 5 3 76 84 0.05433154 0.06002023 0.05930910 3 5.268786 317.4652 7 4 340 348 0.24294398 0.24863255 0.24649915 2 8.775929 170.2338 8 2 349 357 0.24934462 0.25504251 0.25290774 2 6.070536 334.8986 10 2 624 632 0.45076398 0.45646308 0.45432951 3 6.068768 337.2448 11 4 633 637 0.46001843 0.46287373 0.46216061 3 8.765042 173.4799 12 3 638 646 0.46358498 0.46927370 0.46856243 3 5.261393 313.2685 14 3 814 823 0.60542416 0.61213950 0.61107246 1 5.250375 297.0586 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.180267 1.133201 0.0031292430 1.2408773 0.008237195 4.070879 3 1.180126 1.132968 -0.0012794819 1.6711411 0.003415024 3.938274 5 1.180359 1.133093 0.0014997004 2.2921445 0.004039656 2.368579 7 1.178745 1.131456 -0.0005122691 3.3277713 0.002691477 7.613446 8 1.178894 1.131507 -0.0013622010 1.1870436 0.003374587 3.271625 10 1.176526 1.129554 -0.0006865944 1.4896177 0.001954134 5.733456 11 1.176261 1.129192 0.0027676307 0.9805475 0.002978001 1.014229 12 1.176313 1.129474 -0.0008696845 -3.4185004 0.002647895 3.527882 14 1.175419 1.133851 0.0018656944 -19.7235299 0.006087806 26.738596 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 369.596 co2l1 = 4.5 co2l0 = 1.334" [1] "co2l0 = -162.2 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "11 out of 15 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "4 out of 834 1-min values rejected as stack air" [1] "4 out of 834 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"