[1] "2025-04-29 22:41:47 MDT" [1] "1411" "141217" "d351" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141217a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 22:41:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.761" [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] "28 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.761" [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] "28 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:41:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:41:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:42:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:42:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 28 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1408 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:42:16 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 = 404.24 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 = 0.945 co2off = 412.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.01 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 5 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 240 249 0.1670927 0.1733521 0.1709182 1 -25.701156 533.8112 5 4 516 525 0.3758031 0.3820630 0.3796284 2 3.525789 383.9516 6 2 526 535 0.3827584 0.3890175 0.3865836 2 -25.701461 533.3891 7 5 536 545 0.3897130 0.3959730 0.3949299 NA -7.373906 448.4651 9 2 816 825 0.5844782 0.5907381 0.5883036 2 -25.738539 526.2175 10 4 826 835 0.5914334 0.5976926 0.5952585 2 3.514797 384.1332 13 4 1113 1122 0.7931843 0.7994438 0.7970096 2 3.523070 380.3488 14 2 1123 1132 0.8001390 0.8063985 0.8039643 2 -25.714031 528.5592 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.186505 1.314551 0.0022733739 -1.94286496 0.005719543 11.227068 5 1.189285 1.314666 0.0023184840 -0.07243088 0.006001110 3.862803 6 1.189326 1.314765 -0.0008983925 -1.89109142 0.005853488 6.045453 7 1.189185 1.314582 -0.0026840331 1.51401494 0.001900349 2.416094 9 1.187862 1.314250 0.0002413568 -0.02090827 0.003010387 7.681062 10 1.187632 1.314024 -0.0004367568 1.03544861 0.005417682 4.495415 13 1.187032 1.314016 0.0013841132 -0.64284079 0.004571656 5.637628 14 1.187262 1.314267 -0.0003834155 -0.72415646 0.004386592 2.697677 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.909 co2l1 = 0.944 co2l0 = 0" [1] "co2l0 = -196.66 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "84 out of 170 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "86 out of 1276 1-min values rejected as stack air" [1] "86 out of 1276 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"