[1] "2025-04-29 18:50:56 MDT" [1] "1306" "130603" "d154" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130603a.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 18:51:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.72" [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] "14 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.72" [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] "14 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:51:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:51:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:51:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:51:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 14 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1422 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:51:47 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.8" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 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 = 0.276 co2off = 384.76 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: 9.02 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 4 105 114 0.07385764 0.08011878 0.07768322 2 36.40999 156.57959 3 2 115 124 0.08081409 0.08707373 0.08463941 2 -39.25765 246.79115 4 5 125 134 0.08776904 0.09402804 0.09298509 NA 23.50709 139.38086 7 2 394 403 0.28255758 0.28881681 0.28638256 3 -38.42957 246.62485 8 4 404 413 0.28951227 0.29577179 0.29333746 3 36.89405 156.42242 9 3 414 423 0.29646716 0.30272648 0.30168327 3 76.14307 78.53478 11 4 694 703 0.49120043 0.49745961 0.49502577 2 37.40505 157.17298 12 2 704 713 0.49815509 0.50441464 0.50198024 2 -37.48953 245.74956 14 2 994 1003 0.69984062 0.70610012 0.70366578 3 -37.01458 246.87435 15 4 1004 1013 0.70679537 0.71305443 0.71062049 3 37.67762 155.76340 16 5 1014 1023 0.71375000 0.72000926 0.71896605 NA 24.73612 138.20516 17 3 1024 1033 0.72070486 0.72696395 0.72592068 3 76.62713 87.54771 20 4 1291 1300 0.90848843 0.91474769 0.91231365 2 37.82750 156.19851 21 2 1301 1310 0.91544329 0.92170365 0.91926909 2 -36.69910 245.43974 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.299986 1.391092 -0.0003123043 -0.56221737 0.017611014 2.903301 3 1.300063 1.391172 0.0103797717 -0.29970749 0.032346874 1.547519 4 1.299925 1.391012 -0.0476398601 -1.92791185 0.033720155 3.597884 7 1.298264 1.389548 -0.0010199582 0.48402710 0.008094823 2.678616 8 1.298173 1.389484 -0.0037104865 -0.96764097 0.015178677 5.170627 9 1.298131 1.389470 0.0092733683 3.18417575 0.024879586 4.804862 11 1.295574 1.387192 -0.0026105507 -0.15859228 0.013573726 2.822484 12 1.295503 1.387125 -0.0026209397 0.38285377 0.019024596 2.211050 14 1.293800 1.385625 0.0046001119 0.21959976 0.016516927 1.659909 15 1.293716 1.385540 0.0142206073 0.07775507 0.036059652 1.924068 16 1.293809 1.385650 -0.0768718802 2.06493933 0.054447222 3.730272 17 1.293717 1.385575 0.0043376432 -1.92905570 0.015510545 2.839955 20 1.296089 1.388656 -0.0016792263 1.20034418 0.020872835 3.122718 21 1.296289 1.388864 0.0168224545 -0.07331492 0.044641965 1.883654 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.69 co2l1 = 0.274 co2l0 = 0.188" [1] "co2l0 = -131.16 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 150 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "110 out of 1226 1-min values rejected as stack air" [1] "110 out of 514 Line 1 1-min values rejected as stack air" [1] "0 out of 712 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"