[1] "2025-04-29 17:58:28 MDT" [1] "1301" "130205" "d036" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130205a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85844 63 [1] 85844 [1] 85844 [1] "testing skipping spike filter" [1] 85844 [1] 85844 [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 17:58:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.785" [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] "57 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.785" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "57 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:58:33 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:58:33 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:58:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:58:43 MDT" [1] "reading in recalculated plot titles" [1] "Removed 57 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 7 row(s) with high PFRIDGE" [1] "TEMP: 1364 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:58:54 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 = -448.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.7" [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 = 0.398 co2off = 373.78 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.26 minutes" [1] "Shortest Cal: 1 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 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 133 142 0.09545362 0.1017136 0.09927929 2 65.87566 -58.728145 3 2 143 152 0.10240897 0.1086690 0.10623457 2 -12.28045 94.059550 5 2 430 438 0.30413880 0.3097025 0.30761596 3 -11.72088 93.016672 6 4 439 448 0.31109326 0.3173530 0.31491849 3 65.68333 -63.093268 7 3 449 458 0.31804841 0.3243113 0.32326698 3 38.98306 5.009075 9 4 728 737 0.51282607 0.5190887 0.51665231 2 65.96527 -64.529431 10 2 738 747 0.51978414 0.5260432 0.52360914 2 -11.84516 90.035908 11 5 748 757 0.52673860 0.5329982 0.53195515 NA 32.84359 -8.897618 13 2 1024 1033 0.72150642 0.7277652 0.72533133 3 -12.94423 94.312133 14 4 1034 1043 0.72846076 0.7347200 0.73228613 3 66.22832 -63.602624 15 3 1044 1052 0.73541554 0.7416751 0.74074770 3 38.92643 3.899840 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.284339 1.271076 0.0032165505 1.5165065 0.010194920 4.191258 3 1.284587 1.271375 0.0141931839 0.1716851 0.043676883 2.227383 5 1.281627 1.268315 -0.0176834066 0.6151324 0.040132859 2.543777 6 1.281187 1.267864 0.0020487417 0.4155316 0.006767071 1.647910 7 1.281139 1.267843 0.0014962396 3.2910303 0.008076780 4.359352 9 1.286818 1.273828 -0.0074566962 -0.7189891 0.018772841 3.229076 10 1.287040 1.274066 0.0179703387 -1.7536447 0.052329644 5.292371 11 1.286886 1.273937 0.0469978779 -1.3057087 0.033278213 2.930869 13 1.288580 1.275682 -0.0279466672 0.4021788 0.069197794 3.659384 14 1.288705 1.275815 0.0187748652 1.6192221 0.046876196 4.732516 15 1.289359 1.276537 0.0002883064 -0.7430490 0.005275119 1.203192 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.196 co2l1 = 0.397 co2l0 = 0.11" [1] "co2l0 = -97.91 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "190 out of 315 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "125 out of 1202 1-min values rejected as stack air" [1] "125 out of 1202 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"