[1] "2025-04-29 20:47:31 MDT" [1] "1402" "140310" "d069" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140310a.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 20:47:35 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.823, ave o2scale2 = 0.749" [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] "33 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.823, ave o2scale2 = 0.749" [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] "32 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:47:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:47:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:47:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:47:54 MDT" [1] "reading in recalculated plot titles" [1] "Removed 32 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1404 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:47:58 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 = -475.9" [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 = 0.443 co2off = 378.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 178 187 0.1241597 0.1304190 0.1279848 2 57.406883 164.0719 1.216838 3 2 188 197 0.1311146 0.1373739 0.1349397 2 -4.971711 300.7894 1.216864 5 2 478 487 0.3328633 0.3391227 0.3366884 3 -5.033305 309.0973 1.217470 6 4 488 497 0.3398183 0.3460780 0.3436436 3 57.444367 161.4962 1.217313 7 3 498 507 0.3467734 0.3530325 0.3519895 3 36.044008 237.9635 1.217321 9 4 778 787 0.5415471 0.5478067 0.5453723 2 57.417375 159.0890 1.215874 10 2 788 797 0.5485024 0.5547616 0.5523277 2 -4.865414 304.6412 1.215946 11 5 798 807 0.5554572 0.5617169 0.5606739 NA 32.187250 225.1897 1.215845 14 2 1078 1087 0.7502454 0.7565083 0.7540735 3 -4.688625 309.2281 1.211741 15 4 1088 1097 0.7572037 0.7634633 0.7610292 3 57.392469 159.8158 1.211623 16 3 1098 1107 0.7641586 0.7704183 0.7693751 3 36.107719 246.6833 1.211646 18 4 1356 1363 0.9603079 0.9651761 0.9634376 2 57.404135 162.5232 1.212770 19 2 1364 1371 0.9658719 0.9707405 0.9690018 2 -5.014823 301.8456 1.212921 jfcv2 co2slp o2slp co2sd o2sd 2 1.337038 -0.0033161588 1.5875393 0.016866249 5.417606 3 1.337061 -0.0070988604 -1.3882735 0.024725952 8.715774 5 1.337626 -0.0002147388 1.2863197 0.005596998 4.762908 6 1.337461 0.0080749629 2.1658616 0.024168319 5.838550 7 1.337483 -0.0018002338 -2.0191550 0.005648506 2.731900 9 1.335993 0.0027281811 0.4605226 0.010557401 5.734543 10 1.336083 -0.0036133174 -0.2416838 0.011074723 2.043265 11 1.335967 -0.0337064625 -2.3389785 0.023864854 3.604774 14 1.331598 0.0022045178 1.9303195 0.010649551 6.381095 15 1.331466 0.0029538219 0.2199863 0.010428969 2.418821 16 1.331506 -0.0098448161 2.2691207 0.024435410 3.087672 18 1.332714 0.0051732924 0.8245500 0.009955323 1.846525 19 1.332877 0.0051440668 1.7004588 0.011878514 4.469690 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.815 co2l1 = 0.443 co2l0 = 0.018" [1] "co2l0 = -149.45 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "26 out of 130 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "104 out of 1224 1-min values rejected as stack air" [1] "56 out of 1165 Line 1 1-min values rejected as stack air" [1] "48 out of 59 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"