[1] "2025-04-29 22:12:08 MDT" [1] "1409" "141013" "d286" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141013a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 22:12:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [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] "4 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "6 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:12:13 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:12:13 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:12:30 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:12:32 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1426 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:12:38 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 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.482 co2off = 392.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.06 minutes" [1] "Average Cal: 9.05 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 168 177 0.1181329 0.1243924 0.1219579 3 -34.288859 283.6468 3 4 178 187 0.1250880 0.1313472 0.1289128 3 23.242680 138.1525 4 3 188 197 0.1320463 0.1383056 0.1372622 3 3.760117 217.7227 6 4 468 477 0.3268282 0.3330916 0.3306566 2 23.344578 135.3864 7 2 478 487 0.3337870 0.3400516 0.3376145 2 -34.159148 281.6506 9 2 762 771 0.5352477 0.5415406 0.5390933 3 -33.949898 282.7350 10 4 772 781 0.5422404 0.5485313 0.5460847 3 23.555602 139.6164 11 5 782 791 0.5492309 0.5555231 0.5544745 NA 2.279687 201.8570 12 3 792 801 0.5562234 0.5625174 0.5614685 3 4.089297 217.6794 14 4 1060 1069 0.7436979 0.7499908 0.7475432 2 23.727703 152.1441 15 2 1070 1079 0.7506902 0.7569826 0.7545357 2 -33.774672 277.6747 17 2 1358 1367 0.9521898 0.9584834 0.9560358 3 -33.641477 285.9270 18 4 1368 1377 0.9591840 0.9654780 0.9630303 3 23.908578 142.3327 19 3 1378 1387 0.9661771 0.9724689 0.9714205 3 4.398797 217.4748 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.163762 1.293040 -0.0039400664 1.21158684 0.011341530 3.270005 3 1.163918 1.293235 0.0016972262 -0.04226565 0.013135474 3.140621 4 1.164112 1.293462 0.0027289817 -1.47550811 0.008994631 2.305210 6 1.166374 1.295949 0.0061798075 -1.25422611 0.015322309 4.058428 7 1.166668 1.296294 0.0036079130 0.12835145 0.010902620 1.860117 9 1.172671 1.303169 -0.0037412917 0.47053766 0.013069053 3.260119 10 1.172798 1.303189 0.0039123002 0.35356521 0.013155828 3.747687 11 1.172881 1.303394 -0.0036011424 4.82205579 0.002563262 6.325586 12 1.173262 1.303849 -0.0015542173 -1.41992751 0.004360275 1.905016 14 1.179835 1.311082 0.0043817249 2.66164364 0.012157989 12.801427 15 1.180181 1.311497 0.0031864907 -2.56831259 0.011706404 13.699395 17 1.186183 1.318014 -0.0008755859 1.00066217 0.003829068 4.308674 18 1.186316 1.318159 -0.0025144494 0.26169379 0.014160265 4.540290 19 1.186591 1.318483 -0.0008412034 1.27021377 0.002943620 2.829441 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.948 co2l1 = 0.48 co2l0 = 0.084" [1] "co2l0 = -145.88 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "8 out of 10 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "2 out of 1244 1-min values rejected as stack air" [1] "2 out of 1244 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] "making html"