[1] "2025-04-30 01:09:29 MDT" [1] "1601" "160128" "d028" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160128a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 01:09:33 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.891, ave o2scale2 = 0.787" [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] "13 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.891, ave o2scale2 = 0.787" [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] "13 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:09:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:09:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:09:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:09:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 13 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 28 row(s) with low FLSP" [1] "TEMP: 1395 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:09:55 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 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [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 = 0.948 co2off = 404.94 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 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 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 208 217 0.1454618 0.1517213 0.1492873 3 -21.242891 495.6238 3 4 218 227 0.1524167 0.1586765 0.1562421 3 1.449008 380.3805 4 3 228 237 0.1593718 0.1656308 0.1645877 3 -12.103570 484.5321 6 4 502 511 0.3541357 0.3603955 0.3579614 2 1.426477 383.1304 7 2 512 521 0.3610908 0.3673506 0.3649163 2 -21.271656 495.8502 9 2 802 811 0.5628468 0.5691065 0.5666720 3 -21.316766 498.3568 10 4 812 821 0.5698017 0.5760614 0.5736269 3 1.374437 376.2343 11 3 822 831 0.5767569 0.5830163 0.5819729 3 -12.174672 485.1580 13 4 1068 1077 0.7715232 0.7777825 0.7753484 2 1.358234 383.1263 14 2 1078 1087 0.7784781 0.7847373 0.7823032 2 -21.336828 495.6635 18 2 1368 1377 0.9802600 0.9865197 0.9840852 2 -21.364586 495.7302 19 4 1378 1387 0.9872153 0.9934782 0.9910407 2 1.341992 381.1304 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.124693 1.273203 -5.958899e-04 1.94997336 0.002929558 4.860973 3 1.124642 1.273105 3.505604e-03 1.58589114 0.009739488 4.360015 4 1.124842 1.273280 -8.232650e-05 -0.81085719 0.007296223 1.094897 6 1.123364 1.271847 -7.273894e-04 0.65186241 0.003355921 3.557721 7 1.123493 1.271994 -5.469279e-04 1.87190219 0.004145916 4.854820 9 1.122309 1.270814 2.214008e-04 1.01516833 0.004133345 3.176409 10 1.122142 1.270620 2.980362e-03 0.92504361 0.007812679 3.274062 11 1.122182 1.270659 2.107087e-03 0.03611355 0.005373832 1.209006 13 1.120910 1.269343 9.911483e-04 1.25838710 0.004019171 3.828876 14 1.120926 1.269367 -5.651178e-05 -0.30355717 0.003477727 1.246241 18 1.117412 1.265515 -1.950070e-03 0.55148106 0.005793502 2.227225 19 1.117345 1.265420 1.126057e-03 0.70348223 0.005697395 2.809125 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.861 co2l1 = 0.948 co2l0 = 0.001" [1] "co2l0 = -200.08 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "71 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "204 out of 1231 1-min values rejected as stack air" [1] "158 out of 1173 Line 1 1-min values rejected as stack air" [1] "46 out of 58 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"