[1] "2025-04-29 22:58:15 MDT" [1] "1501" "150126" "d026" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150126a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85860 63 [1] 85860 [1] 85860 [1] "testing skipping spike filter" [1] 85860 [1] 85860 [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 22:58:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.767" [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] "13 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.849, ave o2scale2 = 0.767" [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] "13 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:58:20 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:58:20 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:58:36 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:58:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 14 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1416 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:58:43 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 = -477.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [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 CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.938 co2off = 392.57 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.07 minutes" [1] "Average Cal: 8.92 minutes" [1] "Shortest Cal: 8.06 minutes" [1] "Longest Cal: 9.13 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 199 208 0.1436560 0.1499190 0.1474842 2 12.523188 134.3578 3 2 209 218 0.1506146 0.1568773 0.1544432 2 -16.953016 278.4284 4 5 219 228 0.1575764 0.1638357 0.1627923 NA 1.237906 192.6685 6 2 499 508 0.3524063 0.3587156 0.3562586 3 -16.977867 278.2409 7 4 509 518 0.3594187 0.3657592 0.3632901 3 12.503781 137.1538 8 3 519 528 0.3664653 0.3727976 0.3717433 3 2.625773 208.8961 10 4 796 805 0.5613970 0.5676992 0.5652485 2 12.545250 138.7478 11 2 806 815 0.5683992 0.5746945 0.5722463 2 -16.920773 278.5685 13 2 1094 1103 0.7700706 0.7763762 0.7739234 3 -16.933445 281.1962 14 4 1104 1113 0.7770764 0.7833796 0.7809268 3 12.544039 134.2605 15 5 1114 1123 0.7840790 0.7903779 0.7893281 NA 1.257219 187.7347 16 3 1124 1133 0.7910782 0.7973729 0.7963240 3 2.661359 214.9044 18 4 1392 1400 0.9793485 0.9849453 0.9828461 2 12.461268 130.4725 19 2 1401 1409 0.9856451 0.9912411 0.9891426 2 -17.027634 282.0708 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.176517 1.303244 0.0039080065 1.29666251 0.010466678 7.580579 3 1.176688 1.303417 -0.0024370412 0.96295910 0.006687020 4.596597 4 1.176604 1.303280 -0.0068008818 -0.53749266 0.004817165 4.474205 6 1.177436 1.304188 -0.0022628371 -1.16111686 0.006377489 3.287657 7 1.177410 1.304164 -0.0003629225 0.17942336 0.005446063 1.204052 8 1.177652 1.304440 0.0009376729 1.64250992 0.003888648 2.382333 10 1.178439 1.305340 0.0016256959 0.66504467 0.004874657 7.242894 11 1.178570 1.305492 -0.0020484716 -1.06701017 0.006948386 3.469226 13 1.178869 1.306021 -0.0021641723 -0.64796978 0.006935242 2.445771 14 1.178761 1.305894 0.0010729248 0.16985835 0.004479235 3.282400 15 1.178675 1.305773 -0.0200363922 -4.02850124 0.014274718 5.510243 16 1.178743 1.305859 -0.0011141465 -3.09210045 0.004015838 4.570041 18 1.175511 1.302375 -0.0004784392 0.01227257 0.002576616 1.931295 19 1.175597 1.302383 -0.0026726360 0.57914675 0.008053324 5.879576 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.518 co2l1 = 0.937 co2l0 = 0.008" [1] "co2l0 = -143.41 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "110 out of 256 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "146 out of 1226 1-min values rejected as stack air" [1] "146 out of 1226 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"