[1] "2025-04-29 22:04:30 MDT" [1] "1408" "140920" "d263" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140920a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83591 63 [1] 83591 [1] 83591 [1] "testing skipping spike filter" [1] 83591 [1] 83591 [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 22:04:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.803, ave o2scale2 = 0.724" [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] "28 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.803, ave o2scale2 = 0.724" [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] "28 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:04:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:04:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:04:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:04:54 MDT" [1] "reading in recalculated plot titles" [1] "Removed 28 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1363 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:04:58 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 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.477 co2off = 384.25 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.13 minutes" [1] "Average Cal: 9.11 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.14 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 107 116 0.07504294 0.08130313 0.07886836 3 -24.78002 280.8356 3 4 117 126 0.08199847 0.08825770 0.08582354 3 33.20939 137.6812 4 3 127 136 0.08895304 0.09521435 0.09416990 3 13.55665 222.4295 6 4 404 413 0.28371444 0.29006019 0.28759295 2 33.20889 146.8485 7 2 414 423 0.29076505 0.29710909 0.29464303 2 -24.77137 285.8242 9 2 697 706 0.49236438 0.49870946 0.49624123 3 -24.70712 283.4406 10 4 707 716 0.49941444 0.50575677 0.50329017 3 33.26808 140.6768 11 5 717 726 0.50646183 0.51280440 0.51174750 NA 11.59038 205.2005 12 3 727 736 0.51350992 0.51985191 0.51879476 3 13.59255 222.6400 14 4 986 995 0.70113773 0.70748264 0.70501473 2 33.22054 142.6527 15 2 996 1003 0.70818750 0.71452839 0.71182769 2 -24.72719 283.0491 17 2 1240 1249 0.90985535 0.91619913 0.91373198 3 -24.89334 285.3036 18 4 1250 1259 0.91690414 0.92324878 0.92078188 3 33.08608 134.2669 19 3 1260 1269 0.92395376 0.93029818 0.92924015 3 13.42654 219.5531 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.238958 1.373242 -0.0004085851 0.9547191 0.002575587 6.658571 3 1.238898 1.373242 0.0070518877 1.4162285 0.018195177 4.749849 4 1.239398 1.373602 -0.0001532988 -7.6006127 0.005382360 10.710352 6 1.243696 1.377833 0.0026362813 -2.0965453 0.007734413 6.427655 7 1.243813 1.377960 -0.0044854016 1.9688211 0.015316943 6.165065 9 1.247821 1.382582 -0.0035779481 -1.5743690 0.010492876 5.169523 10 1.247736 1.382497 0.0024033998 1.0585537 0.008562647 3.120464 11 1.247863 1.382602 -0.0027108063 3.5486319 0.001944544 4.715776 12 1.247930 1.382663 0.0021813888 -0.5311456 0.008658671 1.117487 14 1.249129 1.383980 0.0030050084 -0.5977090 0.008511674 3.636366 15 1.249696 1.384584 -0.0009391554 1.1958712 0.005846206 3.738084 17 1.249486 1.385013 -0.0036783544 -1.6010729 0.009641220 4.707427 18 1.249458 1.384930 0.0054056827 -0.4755164 0.018147546 4.085804 19 1.249451 1.384870 -0.0056303913 3.3610878 0.015391177 6.099242 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 388.444 co2l1 = 0.476 co2l0 = 0.095" [1] "co2l0 = -145.05 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "152 out of 423 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "271 out of 1183 1-min values rejected as stack air" [1] "271 out of 1183 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] "making html"