[1] "2017-09-20 21:10:59 MDT" [1] "1611" "161118" "d323" [1] "reading in high rate data from /scr/raf/stephens/GO2DAT/DIRECT/161118a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83400 63 [1] 83400 [1] 83400 [1] "applying high-rate spike filter" [1] "Removing 3 HR FC 1 glitches greater than 200" [1] "done applying high-rate spike filter" [1] 83400 [1] 83400 [1] 83400 [1] 83400 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2017-09-20 21:11:19 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.013, ave o2scale2 = 0.829" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.013, ave o2scale2 = 0.829" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2017-09-20 21:11:21 MDT" [1] "Plotting 1-second data" [1] "2017-09-20 21:11:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2017-09-20 21:11:36 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2017-09-20 21:11:39 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1386 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2017-09-20 21:11:44 MDT" [1] "Reading in cylinder log" Read 74 records [1] "Finding cylinder IDs" Read 428 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.49 O2 = -529.8" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.12 O2 = -532.4" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.97 O2 = -656.3" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.14 O2 = -661.5" [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 = 0.96 co2off = 412.31 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.28 minutes" [1] "Average Cal: 8.21 minutes" [1] "Shortest Cal: 7.23 minutes" [1] "Longest Cal: 8.38 minutes" [1] "Removed 1 O2 cals with SD > 30" [1] "Removed 3 anomalous calibration row(s)" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 172 180 0.1240899 0.1298404 0.1276735 2 -10.66047 -56.88725 3 2 181 189 0.1306061 0.1364226 0.1342539 2 -33.06642 61.99473 6 2 460 468 0.3324881 0.3382577 0.3360973 3 -33.09916 61.12774 7 4 469 477 0.3389682 0.3447201 0.3425664 3 -10.71647 -54.66050 8 3 478 486 0.3454384 0.3511780 0.3504599 3 -24.09813 44.17026 10 4 750 758 0.5408528 0.5466138 0.5444468 1 -10.67721 -40.06224 13 2 1038 1046 0.7492284 0.7549828 0.7528245 3 -32.99754 60.05856 14 4 1047 1055 0.7556936 0.7614275 0.7592875 3 -10.60754 -56.90258 16 3 1065 1073 0.7685828 0.7743120 0.7735980 3 -23.98208 43.24672 18 4 1328 1336 0.9573978 0.9631474 0.9609971 2 -10.53396 -54.72637 19 2 1337 1345 0.9638585 0.9696130 0.9674471 2 -32.91523 59.86231 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9848338 1.203871 -0.0007706382 -0.5925091 0.003189717 2.2644499 3 0.9849773 1.204034 -0.0030159726 -2.2674718 0.008036596 6.2387080 6 0.9858367 1.204982 -0.0020781034 -0.2732328 0.006168094 4.0062643 7 0.9857715 1.204905 0.0017682669 -0.7579050 0.004806660 4.2257525 8 0.9858564 1.205029 -0.0027737346 -0.1858456 0.006536257 0.8262363 10 0.9873155 1.206658 -0.0017028180 8.7779208 0.004278224 24.6099591 13 0.9897087 1.209406 -0.0001282934 0.9908369 0.004745573 4.6924003 14 0.9896959 1.209396 0.0019896013 -2.3244112 0.005041734 5.6316545 16 0.9898862 1.209582 -0.0013871410 -1.7293003 0.003746650 1.8626587 18 0.9922970 1.212318 0.0010292254 -0.8254359 0.002803889 2.2560051 19 0.9924325 1.212482 -0.0027488759 -0.6527200 0.007485639 1.9090059 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 416.182 co2l1 = 0.96 co2l0 = 0.026" [1] "co2l0 = -105.17 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "290 out of 570 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "280 out of 1209 1-min values rejected as stack air" [1] "280 out of 1209 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"