[1] "2025-04-29 20:36:18 MDT" [1] "1402" "140217" "d048" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140217a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 20:36:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.737" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.737" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:36:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:36:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:36:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:36:42 MDT" [1] "reading in recalculated plot titles" [1] "TEMP: 1436 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:36:48 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.413 co2off = 378.21 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 34 43 0.02400113 0.03026010 0.02782589 3 -3.335609 304.2426 3 4 44 53 0.03095538 0.03721513 0.03478091 3 63.836398 158.0011 4 3 54 63 0.03791053 0.04417017 0.04312669 3 40.761039 237.0934 6 4 334 343 0.23272106 0.23898061 0.23654657 2 63.694336 160.4171 7 2 344 353 0.23967593 0.24593611 0.24350138 2 -3.309133 299.7714 8 5 354 363 0.24663151 0.25289068 0.25184753 NA 38.060156 221.5034 10 2 634 643 0.44140804 0.44766782 0.44523325 3 -3.227234 307.4965 11 4 644 653 0.44836328 0.45462269 0.45218817 3 63.538625 158.7114 12 3 654 663 0.45531829 0.46157763 0.46053432 3 40.605375 241.6319 14 4 934 943 0.65008226 0.65634144 0.65390751 2 63.391422 164.8924 15 2 944 953 0.65703707 0.66329630 0.66086222 2 -3.364609 302.5911 17 2 1234 1243 0.85874306 0.86500579 0.86257171 3 -3.436289 298.3106 18 4 1244 1253 0.86570136 0.87196418 0.86952985 3 63.241773 159.8101 19 5 1254 1263 0.87265972 0.87891901 0.87787584 NA 37.594781 222.9609 20 3 1264 1273 0.87961458 0.88587384 0.88483046 3 40.297484 244.0534 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.235163 1.355485 0.0029536878 1.7932772 0.0113151265 6.286313 3 1.235024 1.355341 0.0009009693 0.7069884 0.0138420594 3.429094 4 1.235064 1.355423 -0.0092788152 -0.4450506 0.0229800947 1.361448 6 1.234778 1.355226 -0.0005829608 -1.3758205 0.0104595809 3.923366 7 1.234578 1.354973 0.0013002667 1.6050661 0.0083576872 4.923705 8 1.234906 1.355307 -0.0272704580 -1.7452302 0.0193128540 2.519647 10 1.234987 1.355596 -0.0078666614 2.3847462 0.0208686568 6.446622 11 1.235051 1.355739 0.0077601388 3.0197042 0.0208687972 7.540021 12 1.235391 1.356117 -0.0023715087 1.9101730 0.0108749487 3.520830 14 1.237770 1.358789 -0.0038398169 2.8232597 0.0106935160 7.200022 15 1.237915 1.359019 -0.0069975730 0.7833218 0.0175562791 5.365476 17 1.239184 1.360295 0.0028167363 1.3540181 0.0120934760 4.579799 18 1.238922 1.359983 0.0066836772 1.8600877 0.0212984201 5.230477 19 1.238827 1.359870 0.0009361348 -1.7278046 0.0006629126 2.528061 20 1.238807 1.359866 -0.0043421606 -0.3310227 0.0134270828 1.024502 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.028 co2l1 = 0.413 co2l0 = -0.006" [1] "co2l0 = -149.67 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "118 out of 204 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "86 out of 1229 1-min values rejected as stack air" [1] "86 out of 1229 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"