[1] "2025-04-30 03:27:11 MDT" [1] "1707" "170829" "d241" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170829a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 03:27:15 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.86, ave o2scale2 = 1.038" [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] "30 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.86, ave o2scale2 = 1.038" [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] "30 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:27:15 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:27:15 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:27:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:27:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 30 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1295 row(s) with low FLSP" [1] "TEMP: 78 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:27:39 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 CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.507 co2off = 413.31 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.18 minutes" [1] "Average Cal: 39.56 minutes" [1] "Shortest Cal: 6.15 minutes" [1] "Longest Cal: 298.57 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 5 [4,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 2 1 8 0.1903047 0.1952922 0.1935124 2 -4.153615 318.5131 1.161018 2 4 9 16 0.1960035 0.2009796 0.1992023 2 -1.427479 164.5542 1.161167 4 4 24 31 0.3981061 0.4030950 0.4013096 2 -1.408250 167.7460 1.163021 5 2 32 47 0.4038061 0.6111477 0.5222341 2 -4.104826 330.7391 1.163758 6 4 48 56 0.6118596 0.6175587 0.6154233 1 -1.381857 161.6375 1.164297 8 4 63 70 0.8141994 0.8191817 0.8174021 2 -1.359052 166.9013 1.167426 9 2 71 78 0.8198938 0.8248845 0.8231023 2 -4.069250 312.6401 1.167575 jfcv2 co2slp o2slp co2sd o2sd 1 0.9672118 0.0007504744 1.19410214 0.0015559446 12.569800 2 0.9672423 0.0004116651 7.30132029 0.0020941386 14.750977 4 0.9656234 0.0001463097 -7.61644701 0.0005462943 15.069566 5 0.9644541 0.0001109499 -0.05471481 0.0168178373 16.256554 6 0.9634857 -0.0016071514 2.23648693 0.0039476909 8.796574 8 0.9626187 0.0019842653 -6.88750672 0.0038465522 18.953309 9 0.9626468 -0.0006511191 -0.42173716 0.0020570002 9.949613 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 415.279 co2l1 = 4.483 co2l0 = 0" [1] "co2l0 = -164.37 co2l1 = 0.235" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"