[1] "2025-04-29 20:02:07 MDT" [1] "1312" "131212" "d346" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131212a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 20:02:11 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.749" [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] "206 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.749" [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] "207 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:02:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:02:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:02:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:02:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 207 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1224 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:02:38 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -446.3" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.447 co2off = 371.38 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.06 minutes" [1] "Average Cal: 6.42 minutes" [1] "Shortest Cal: 1.01 minutes" [1] "Longest Cal: 9.06 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 4 [3,] 5 6 [4,] 7 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.00378588 0.01004745 0.007463798 2 29.75107 208.6140 2 3 10 13 0.01074311 0.01283021 0.017527170 2 54.12134 133.0955 4 4 237 246 0.20552199 0.21178111 0.209346893 2 29.82884 208.7006 5 2 247 252 0.21247642 0.21595385 0.214910446 2 -16.53572 293.8439 8 4 506 510 0.42266664 0.42755168 0.426855006 2 29.89635 209.8403 10 3 514 523 0.43523235 0.44152546 0.440476548 2 54.00485 132.4599 13 4 727 735 0.62338993 0.62898501 0.626886830 2 29.80704 209.9419 14 2 736 741 0.62968466 0.63527885 0.633705245 2 -16.39537 297.1302 16 2 1003 1008 0.83389902 0.83739534 0.836346181 2 -16.95497 297.7798 17 4 1009 1017 0.83809491 0.84438915 0.841791200 2 29.62587 198.3664 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.221398 1.344050 0.0081572163 -0.18586085 0.022441437 2.937757 2 1.220403 1.342855 -0.0046783383 -0.36971487 0.003314563 5.492066 4 1.214550 1.336842 0.0004747892 1.02370385 0.002686137 4.942391 5 1.214452 1.336757 0.0032451136 -2.80862692 0.010769181 7.189791 8 1.212051 1.334247 0.0104941702 2.11496245 0.010573734 2.123781 10 1.211727 1.333987 -0.0005329305 -3.42004389 0.008740361 5.037409 13 1.211012 1.333142 0.0034328696 -2.94878191 0.011550098 7.868395 14 1.210890 1.333245 0.0048531486 0.05548777 0.014043538 2.827486 16 1.210740 1.332766 0.0027554725 -1.04415622 0.003970103 1.365373 17 1.210455 1.332491 0.0026640127 -1.91083855 0.010655491 15.663905 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.931 co2l1 = 0.438 co2l0 = 0" [1] "co2l0 = -141.3 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 175 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "146 out of 1096 1-min values rejected as stack air" [1] "134 out of 1013 Line 1 1-min values rejected as stack air" [1] "12 out of 83 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"