[1] "2025-04-30 01:08:04 MDT" [1] "1601" "160125" "d025" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160125a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83927 63 [1] 83175 [1] 83175 [1] "testing skipping spike filter" [1] 83175 [1] 83175 [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 01:08:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.788" [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 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "38 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.788" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 3 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "40 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:08:08 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:08:08 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:08:17 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:08:19 MDT" [1] "reading in recalculated plot titles" [1] "Removed 40 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 29 row(s) with low FLSP" [1] "Removed 274 row(s) with high TFRIDGE" [1] "Removed 2 row(s) with variable TFCELL" [1] "TEMP: 1052 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:08:21 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 = 0.948 co2off = 410.83 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.29 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 5 6 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 3 72 76 0.2274070 0.2301887 0.2308842 3 -12.016354 495.6697 3 2 77 86 0.2308843 0.2371435 0.2347093 3 -21.176438 494.8400 4 4 87 96 0.2378391 0.2440986 0.2416642 3 1.524664 380.6206 5 5 97 106 0.2447940 0.2510571 0.2500136 NA -11.502000 457.5821 7 4 334 343 0.4326018 0.4388611 0.4364269 2 1.533562 380.6103 8 2 344 353 0.4395595 0.4458195 0.4433852 2 -21.181898 494.4471 10 2 578 587 0.6413414 0.6476009 0.6451665 3 -21.139891 496.6221 11 4 588 597 0.6482963 0.6545598 0.6521238 3 1.548336 381.2393 12 3 598 607 0.6552553 0.6615150 0.6604716 3 -11.999828 485.5734 14 4 878 884 0.8500492 0.8549177 0.8532484 2 1.573989 371.1231 15 2 885 893 0.8577002 0.8632655 0.8611775 2 -21.129813 495.8271 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.121720 1.267321 0.0006240098 6.6359679 0.0009277268 10.923288 3 1.121891 1.267381 -0.0015674465 1.2696272 0.0047423576 4.055023 4 1.121996 1.267549 0.0009666492 -0.2317714 0.0040008282 2.360180 5 1.122136 1.267763 -0.0037451625 -2.1895651 0.0026516504 3.686826 7 1.122520 1.268787 -0.0011174456 1.1972255 0.0032417478 4.358426 8 1.122490 1.268757 0.0005283139 0.7582846 0.0029979415 2.480761 10 1.123529 1.270192 -0.0014144125 0.2811456 0.0036881431 2.738919 11 1.123449 1.270087 0.0013811675 0.2403493 0.0055478778 4.010006 12 1.123637 1.270293 -0.0009136803 -2.0926416 0.0031572885 2.759443 14 1.125197 1.271935 -0.0002229590 -1.3712527 0.0028039950 8.024297 15 1.125236 1.272020 -0.0017041336 -0.1837262 0.0052658491 2.625005 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.712 co2l1 = 0.947 co2l0 = 0" [1] "co2l0 = -197.32 co2l1 = 0.214" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "48 out of 210 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "162 out of 909 1-min values rejected as stack air" [1] "162 out of 909 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"