[1] "2025-04-29 20:59:47 MDT" [1] "1403" "140403" "d093" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140403a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 59245 63 [1] 59245 [1] 59245 [1] "testing skipping spike filter" [1] 59245 [1] 59245 [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 20:59:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.796, ave o2scale2 = 0.725" [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] "9 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.796, ave o2scale2 = 0.725" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:59:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:59:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:00:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:00:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 978 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:00:07 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.385 co2off = 373.21 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.85 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 45 54 0.03122350 0.03748273 0.03504877 2 81.270992 124.3787 3 2 55 64 0.03817824 0.04443776 0.04200377 2 9.346336 271.7072 4 5 65 74 0.04513313 0.05139285 0.05034954 NA 51.834437 202.6260 6 2 345 354 0.23986982 0.24612948 0.24369516 3 9.241664 273.5738 7 4 355 364 0.24682486 0.25308449 0.25064990 3 81.096141 129.6997 8 3 365 374 0.25377992 0.26003906 0.25899586 3 56.463609 212.0679 10 4 644 653 0.44851392 0.45477315 0.45233884 2 80.882516 139.0196 11 2 654 663 0.45546875 0.46172778 0.45929358 2 9.280656 271.6922 13 2 941 950 0.65715489 0.66341360 0.66097964 3 9.205703 281.1330 14 4 951 960 0.66410900 0.67036837 0.66793437 3 80.742859 128.8872 16 3 970 978 0.67871415 0.68427781 0.68358227 3 56.190295 207.6070 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.259167 1.381977 -0.004030322 5.8436511 0.018942124 17.782702 3 1.259177 1.382080 -0.003590821 2.1646765 0.011596400 6.245211 4 1.259361 1.382204 -0.080267976 12.9005168 0.056833708 18.723704 6 1.258457 1.380933 -0.001000635 0.2767055 0.004629214 2.977142 7 1.258259 1.380726 0.001745612 1.3220396 0.013712642 5.909609 8 1.258108 1.380481 -0.002270479 4.4708541 0.010400718 6.045573 10 1.254825 1.377259 -0.004410291 -1.0068422 0.013166209 9.397958 11 1.254674 1.377063 -0.001153078 0.9335350 0.005947032 3.376903 13 1.256607 1.379105 -0.016046449 0.6265195 0.040032336 3.735219 14 1.256462 1.378982 0.013086728 -0.4891644 0.037647296 4.038221 16 1.257441 1.380100 0.001201448 1.0563080 0.004918306 1.481064 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.074 co2l1 = 0.385 co2l0 = -0.192" [1] "co2l0 = -142.59 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "118 out of 170 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "52 out of 823 1-min values rejected as stack air" [1] "52 out of 823 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"