[1] "2025-04-29 17:43:24 MDT" [1] "1301" "130115" "d015" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130115a.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] "2025-04-29 17:43:28 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.781" [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] "6 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.781" [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] "6 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:43:29 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:43:29 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:43:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:43:49 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1430 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:44:09 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -448.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.4 co2off = 385.99 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 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 186 195 0.1308021 0.1370615 0.1346271 2 62.25352 -65.464775 3 2 196 205 0.1377570 0.1440198 0.1415831 2 -15.92109 91.125860 5 2 486 495 0.3394907 0.3457497 0.3433155 3 -15.39097 95.706798 6 4 496 505 0.3464452 0.3527080 0.3502716 3 62.14970 -64.195235 7 3 506 515 0.3534034 0.3596645 0.3586215 3 35.52146 8.391151 9 4 785 794 0.5481806 0.5544400 0.5520061 2 62.13586 -63.581274 10 2 795 804 0.5551355 0.5613948 0.5589607 2 -15.14270 95.788012 11 5 805 814 0.5620903 0.5683498 0.5673068 NA 29.33581 -11.902581 13 2 1085 1094 0.7568727 0.7631320 0.7606978 3 -14.89762 95.855153 14 4 1095 1104 0.7638273 0.7700866 0.7676525 3 62.08350 -64.782511 15 3 1105 1114 0.7707820 0.7770417 0.7759985 3 35.46613 3.629292 17 4 1385 1392 0.9655661 0.9718261 0.9696236 2 62.27275 -64.763444 18 2 1393 1402 0.9725215 0.9787812 0.9763466 2 -15.76247 98.504437 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.295442 1.284508 -0.002911309 -0.4882410 0.011166203 5.3826515 3 1.295462 1.284497 0.011171660 0.9458821 0.029534142 2.4771225 5 1.292997 1.281818 0.004433744 -0.2152871 0.011957934 3.4878287 6 1.292774 1.281587 0.001922849 0.4158274 0.007703159 1.7891105 7 1.292614 1.281395 0.011822247 1.4320187 0.030757021 1.9396328 9 1.289274 1.277860 0.009721788 -0.4859083 0.025452397 1.9537463 10 1.289667 1.278271 0.013954274 0.7489056 0.035479031 3.5362789 11 1.289788 1.278382 0.033082269 -1.0334997 0.023422912 1.4941544 13 1.289524 1.278199 -0.024366147 0.8653312 0.061100815 3.9671495 14 1.289258 1.277960 0.011043260 -0.9392661 0.028870439 4.1738508 15 1.289149 1.277845 0.004318882 1.0142961 0.013185254 1.5812878 17 1.290533 1.279200 -0.007900791 -0.1573660 0.022248350 1.1849356 18 1.290667 1.279334 0.005755428 0.2643789 0.017071671 0.7460123 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.51 co2l1 = 0.4 co2l0 = 0.141" [1] "co2l0 = -97.94 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "77 out of 215 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "138 out of 1250 1-min values rejected as stack air" [1] "138 out of 1250 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"