[1] "2025-04-29 18:22:53 MDT" [1] "1303" "130401" "d091" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130401a.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 18:22:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.776" [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] "303 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.762, ave o2scale2 = 0.776" [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] "304 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:22:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:22:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:23:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:23:09 MDT" [1] "reading in recalculated plot titles" [1] "Removed 304 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1132 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:23:18 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 = -448.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.433 co2off = 386.7 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 6.75 minutes" [1] "Shortest Cal: 2.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Removed 1 calibration row(s) with high SL" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 4 11 0.005356395 0.01022743 0.008486304 2 66.180448 43.89857 3 5 12 21 0.012314583 0.01857784 0.017534823 NA 35.011594 99.55199 4 3 22 29 0.019273177 0.02484036 0.024492650 2 42.200480 132.62428 6 4 279 283 0.210606481 0.21339181 0.212695216 2 65.619125 42.76367 7 2 284 292 0.214087384 0.21965509 0.217565761 2 -5.319223 205.25256 9 2 554 563 0.415886082 0.42214549 0.419711042 3 -6.352461 205.76727 10 4 564 569 0.425622685 0.42910373 0.428060098 3 64.987375 44.45437 11 3 570 577 0.429799074 0.43606157 0.435713918 3 40.598344 122.58688 13 4 748 755 0.624606481 0.63017361 0.628085532 2 65.235636 50.06523 14 2 756 764 0.631564815 0.63782755 0.635241952 2 -6.247356 208.72848 17 2 959 963 0.836150492 0.83893255 0.838237133 2 -6.578208 210.61302 18 4 964 968 0.840323264 0.84310880 0.842413166 2 65.572104 46.97106 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.322038 1.298395 0.0027361849 1.0856920 0.010405333 4.8949906 3 1.322287 1.298581 0.0432548269 4.4455643 0.030626562 6.2542011 4 1.322236 1.298407 0.0020027680 13.4909896 0.005548447 9.5530846 6 1.323038 1.299821 0.0011181643 0.6286096 0.001887459 0.6668174 7 1.323090 1.299738 -0.0102376963 -1.5352157 0.023061931 4.4621865 9 1.317181 1.293429 -0.0043850971 -0.4407887 0.012744613 2.3269592 10 1.316532 1.292713 -0.0021338515 1.8475934 0.003759363 2.6032231 11 1.316860 1.293124 0.0004559948 5.0443997 0.005088398 3.5713879 13 1.307889 1.283353 0.0198047005 -0.9234234 0.049398031 3.5602660 14 1.307585 1.283038 -0.0143497523 -0.5013702 0.037499338 1.8731066 17 1.303128 1.278179 -0.0188792529 -2.1970958 0.019053413 3.1376151 18 1.302848 1.278047 0.0205581510 -1.3278827 0.022305788 1.9043038 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 376.93 co2l1 = 0.434 co2l0 = 0.028" [1] "co2l0 = -122.19 co2l1 = 0.213" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "93 out of 290 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "197 out of 972 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "197 out of 972 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"