[1] "2025-04-29 22:35:27 MDT" [1] "1411" "141206" "d340" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141206a.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 22:35:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.764" [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] "11 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.764" [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] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:35:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:35:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:35:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:35:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1425 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:36:00 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 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -635" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 406.09 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 19 28 0.01370255 0.01996166 0.01752728 2 3.642781 384.1418 3 2 29 38 0.02065697 0.02691664 0.02448213 2 -25.624797 525.5856 5 2 318 327 0.22237862 0.22864230 0.22620552 3 -25.634164 530.9136 6 4 328 337 0.22933733 0.23559690 0.23316249 3 3.647203 383.1413 7 3 338 347 0.23629248 0.24255107 0.24150810 3 -6.161875 461.9779 9 4 618 627 0.43107656 0.43733573 0.43490170 2 3.654672 382.3736 10 2 628 637 0.43803131 0.44429051 0.44185638 2 -25.604937 522.3992 11 5 638 647 0.44498605 0.45124884 0.45020548 NA -7.382375 445.2096 13 2 916 925 0.63973657 0.64599983 0.64356250 3 -25.680281 522.0063 14 4 926 935 0.64669514 0.65295417 0.65052008 3 3.589352 381.9409 15 3 936 945 0.65365009 0.65990903 0.65886596 3 -6.214578 459.3682 17 4 1211 1218 0.84839896 0.85465819 0.85222383 2 3.537844 375.6953 18 2 1219 1227 0.85535405 0.86091753 0.85883108 2 -25.731723 526.9164 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.185830 1.313740 -7.134535e-05 0.31535126 0.001064337 2.195446 3 1.185930 1.313850 -1.031044e-03 0.47767582 0.003438190 2.080250 5 1.185522 1.313408 5.793319e-05 0.78359068 0.004688504 3.116546 6 1.185432 1.313317 1.637249e-03 0.42664772 0.005030682 1.302798 7 1.185310 1.313177 -1.992509e-04 6.58270115 0.003940263 9.430422 9 1.185142 1.312981 1.239415e-03 -0.19728089 0.004568642 1.459363 10 1.185304 1.313142 -2.384990e-03 2.60945147 0.006986115 6.909174 11 1.185039 1.312831 -4.492512e-03 -1.90155407 0.003181981 3.039157 13 1.180669 1.308085 4.439629e-04 -0.09790781 0.001701168 6.856965 14 1.180596 1.307971 2.526727e-03 0.36527610 0.006800648 2.504795 15 1.180602 1.307942 -3.747506e-03 -1.97014548 0.009768683 2.971506 17 1.176006 1.302703 6.383208e-04 -3.09890924 0.002051581 9.859567 18 1.176068 1.302880 -4.651412e-03 -0.09666356 0.010573642 3.033186 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.827 co2l1 = 0.943 co2l0 = 0" [1] "co2l0 = -198.16 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "63 out of 125 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "62 out of 1246 1-min values rejected as stack air" [1] "62 out of 1246 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"