[1] "2025-04-29 20:59:01 MDT" [1] "1403" "140402" "d092" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140402a.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 20:59:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.8, ave o2scale2 = 0.728" [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] "18 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.8, ave o2scale2 = 0.728" [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] "19 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:59:06 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:59:06 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:59:30 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:59:31 MDT" [1] "reading in recalculated plot titles" [1] "Removed 19 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1417 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:59:42 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.387 co2off = 372.97 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: 9.01 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 3 1 10 0.001909751 0.008169039 0.007125745 1 57.156172 205.6282 3 4 271 280 0.196644705 0.202903935 0.200470012 2 81.512859 131.8370 4 2 281 290 0.203599537 0.209858796 0.207424660 2 10.115375 273.8058 6 2 569 578 0.405288194 0.411547454 0.409113357 3 10.018430 269.4434 7 4 579 588 0.412243113 0.418502315 0.416068236 3 81.283766 134.2108 8 5 589 598 0.419197917 0.425457176 0.424413831 NA 52.254125 200.5385 9 3 599 608 0.426152720 0.432411632 0.431368482 3 56.791945 201.7742 11 4 868 877 0.613928588 0.620187529 0.617753581 2 81.305156 127.2242 12 2 878 887 0.620883102 0.627142390 0.624708189 2 9.777602 265.0297 14 2 1163 1172 0.822573814 0.828833767 0.826399269 3 9.686703 266.8658 15 4 1173 1182 0.829529109 0.835789063 0.833354669 3 81.227766 126.3800 16 3 1183 1192 0.836484549 0.842744329 0.841701150 3 56.672250 213.1303 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.250758 1.373983 -0.0009822594 -1.7635323 0.006202116 2.825696 3 1.247199 1.370043 -0.0041905808 1.7713935 0.013884036 5.492962 4 1.246910 1.369718 -0.0047089833 2.9293067 0.015716766 13.588352 6 1.246944 1.369179 0.0035686180 -0.5654868 0.010163092 5.736885 7 1.247086 1.369142 0.0057168914 0.8070165 0.016891981 7.985097 8 1.247121 1.369388 -0.0466722130 7.7909763 0.033057242 10.980259 9 1.247540 1.369642 -0.0062204844 -3.8738980 0.015772180 5.601342 11 1.251021 1.373395 0.0018411798 6.3150182 0.007740778 20.523378 12 1.251223 1.373496 -0.0092770399 0.5383875 0.023014770 10.428995 14 1.255285 1.377927 0.0049604576 -1.4885852 0.014162078 15.371028 15 1.255407 1.377935 0.0014069324 3.2477685 0.013447307 9.406459 16 1.255456 1.378018 -0.0054528363 7.3400637 0.013898869 9.886781 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.831 co2l1 = 0.387 co2l0 = -0.216" [1] "co2l0 = -143.24 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "11 out of 25 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "14 out of 1257 1-min values rejected as stack air" [1] "14 out of 1257 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"