[1] "2025-04-29 22:17:35 MDT" [1] "1410" "141029" "d302" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141029a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85920 63 [1] 85920 [1] 85920 [1] "testing skipping spike filter" [1] 85920 [1] 85920 [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 22:17:39 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.761" [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] "37 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.761" [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] "37 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:17:39 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:17:39 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:17:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:18:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 37 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1394 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:18:05 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.945 co2off = 394.62 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.06 minutes" [1] "Average Cal: 7.95 minutes" [1] "Shortest Cal: 7.01 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 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 257 265 0.1797471 0.1853147 0.1832282 3 -24.440616 526.6302 3 4 266 275 0.1860100 0.1922729 0.1898366 3 4.793891 374.1178 4 3 276 285 0.1929682 0.1992312 0.1981864 3 -4.994078 456.1882 6 4 550 558 0.3885355 0.3941021 0.3920133 2 4.729054 380.5097 7 2 559 566 0.3954944 0.4003633 0.3986244 2 -24.514854 524.0464 9 2 836 844 0.5973769 0.6029826 0.6008804 3 -24.647661 526.7696 10 4 845 853 0.6036829 0.6092807 0.6071818 3 4.596223 375.5420 12 3 862 869 0.6183808 0.6232795 0.6229297 3 -5.231438 467.3148 14 4 1126 1134 0.8060111 0.8116112 0.8095114 2 4.506955 378.3563 15 2 1135 1143 0.8123115 0.8179095 0.8158103 2 -24.741304 522.9555 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.189845 1.317064 -3.100163e-03 0.7413129 0.008052677 1.992950 3 1.189634 1.316684 -4.189425e-04 3.3433797 0.003842135 12.118824 4 1.189545 1.316565 1.372554e-03 0.7687143 0.005202780 5.960154 6 1.187582 1.314242 -2.686684e-03 3.1708022 0.005887335 7.550876 7 1.187702 1.314309 3.208864e-04 -1.0346747 0.002418570 3.482575 9 1.186734 1.313031 -3.930007e-03 -0.4579187 0.008602390 2.709269 10 1.186575 1.313022 -1.672511e-03 0.1809802 0.005440595 5.006149 12 1.186361 1.312709 -7.054241e-04 4.2928842 0.001431782 3.058420 14 1.186337 1.312843 1.986045e-03 0.4949394 0.005100770 1.696796 15 1.186459 1.313154 5.308065e-05 -1.6772382 0.007576470 3.757184 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.84 co2l1 = 0.944 co2l0 = 0.004" [1] "co2l0 = -194.97 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "33 out of 70 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "37 out of 1264 1-min values rejected as stack air" [1] "37 out of 1264 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"