[1] "2025-04-30 00:12:18 MDT" [1] "1505" "150613" "d164" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150613a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85928 63 [1] 85928 [1] 85928 [1] "testing skipping spike filter" [1] 85928 [1] 85928 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 00:12:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.863, ave o2scale2 = 0.773" [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] "19 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.863, ave o2scale2 = 0.773" [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] "20 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:12:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:12:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:12:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:12:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 20 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with low FLSP" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 1409 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:12:36 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 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 = 1.016 co2off = 470.34 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.95 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 253 262 0.1778638 0.1841271 0.1816904 3 -88.08359 480.7727 1.159247 3 4 263 272 0.1848224 0.1910856 0.1886484 3 -66.88541 364.1767 1.159067 4 3 273 282 0.1917812 0.1980437 0.1969979 3 -79.56056 470.7683 1.159109 6 4 553 562 0.3866121 0.3928750 0.3904408 2 -66.89348 362.9197 1.158257 7 2 563 571 0.3942697 0.3998368 0.3977474 2 -88.11416 479.3670 1.158499 8 5 572 581 0.4005324 0.4067916 0.4057483 NA -78.92659 440.4364 1.158384 10 2 849 858 0.5954086 0.6016720 0.5992360 3 -88.10976 480.2869 1.158618 11 4 859 868 0.6023673 0.6086308 0.6061939 3 -66.89741 366.3160 1.158608 12 3 869 878 0.6093264 0.6155856 0.6145422 3 -79.56420 479.7106 1.158711 14 4 1145 1154 0.8041515 0.8104165 0.8079816 2 -66.87681 365.5568 1.158081 15 2 1155 1164 0.8111119 0.8173750 0.8149402 2 -88.07157 479.2096 1.158137 17 3 1312 1321 0.9315119 0.9377751 0.9367319 3 -79.50798 469.2677 1.158296 18 2 1322 1331 0.9384705 0.9447303 0.9422959 3 -88.03482 481.3257 1.158434 19 4 1332 1341 0.9454259 0.9516966 0.9492553 3 -66.82901 369.5266 1.158532 jfcv2 co2slp o2slp co2sd o2sd 2 1.295187 1.127244e-03 0.66025758 0.0041915625 2.318334 3 1.294990 1.086190e-03 0.77109979 0.0049283935 4.168249 4 1.295048 2.155100e-03 0.40315369 0.0053736502 1.567720 6 1.294136 7.912056e-04 0.11008324 0.0041711351 2.135365 7 1.294302 2.113604e-04 0.37478921 0.0020258284 1.973577 8 1.294254 -3.806948e-03 -0.06302064 0.0026958446 1.882890 10 1.294359 -1.778981e-03 1.33711205 0.0055146353 11.393916 11 1.294357 1.746909e-03 1.79901082 0.0077100741 8.457610 12 1.294517 5.795506e-04 -1.75974310 0.0034083586 5.338554 14 1.293717 3.104375e-03 1.34587339 0.0082397122 4.743957 15 1.293788 -1.733802e-04 -0.14918419 0.0040635902 2.359842 17 1.293839 2.563280e-04 5.86586825 0.0025044464 8.525376 18 1.294044 -7.650654e-05 -0.09055912 0.0004960081 2.753668 19 1.294148 -1.044883e-03 0.46163622 0.0047214175 3.329456 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 474.032 co2l1 = 1.015 co2l0 = 1.606" [1] "co2l0 = -196.93 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 40 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "2 out of 1194 1-min values rejected as stack air" [1] "2 out of 1194 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"