[1] "2025-04-30 02:11:16 MDT" [1] "1701" "170103" "d003" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170103a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83340 63 [1] 83340 [1] 83340 [1] "testing skipping spike filter" [1] 83340 [1] 83340 [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 02:11:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.045, ave o2scale2 = 0.845" [1] "Removing 1 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] "20 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.045, ave o2scale2 = 0.846" [1] "Removing 2 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "22 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:11:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:11:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:11:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:11:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 22 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1366 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:11:39 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 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [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 CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.969 co2off = 413.52 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.26 minutes" [1] "Average Cal: 8.18 minutes" [1] "Shortest Cal: 7.27 minutes" [1] "Longest Cal: 8.34 minutes" [1] "Removed 1 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 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 261 269 0.1898140 0.1955701 0.1934040 3 -33.83704 231.8847 3 4 270 278 0.1962865 0.2020000 0.1998635 3 -11.55201 110.8433 4 3 279 287 0.2027150 0.2084582 0.2077492 3 -24.87072 214.2275 6 4 548 556 0.3978948 0.4036311 0.4014812 2 -11.68035 111.2249 7 2 557 565 0.4043419 0.4100513 0.4079195 2 -33.97079 220.2052 10 2 835 843 0.6058259 0.6116201 0.6094563 3 -34.15386 225.8730 11 4 844 852 0.6123336 0.6180719 0.6159180 3 -11.86086 113.5306 12 3 853 861 0.6188028 0.6245701 0.6238482 3 -25.18809 200.1516 14 4 1115 1123 0.8142586 0.8200168 0.8178563 2 -11.89591 113.8958 15 2 1124 1131 0.8207365 0.8257826 0.8239678 2 -34.20648 227.8198 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9528985 1.178066 0.0009820017 2.66713318 0.004283525 8.274031 3 0.9528679 1.178058 0.0033936107 -1.62363004 0.008108993 11.515802 4 0.9531086 1.178190 -0.0030935122 -4.77196088 0.007348368 4.919781 6 0.9558819 1.181732 -0.0028329085 4.47651078 0.007599844 11.589777 7 0.9560361 1.181953 -0.0022951729 -1.83385101 0.005501031 16.323699 10 0.9580456 1.184718 -0.0002450285 2.02177240 0.002223722 7.025687 11 0.9581072 1.184849 0.0029883431 -0.96690220 0.007217123 8.402643 12 0.9582734 1.184963 0.0006528923 -7.79231361 0.005267562 8.312363 14 0.9604686 1.187323 -0.0012952099 -0.07529142 0.003063320 8.357572 15 0.9605565 1.187511 -0.0048027322 -6.52349886 0.011334452 16.130010 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 417.5 co2l1 = 0.964 co2l0 = 0.081" [1] "co2l0 = -141.38 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "82 out of 220 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "138 out of 1221 1-min values rejected as stack air" [1] "138 out of 1221 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"