[1] "2025-04-29 16:53:55 MDT" [1] "1210" "120922" "d266" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120922a.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 16:53:59 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.781" [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] "635 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.781" [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] "638 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:54:00 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:54:00 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:54:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:54:22 MDT" [1] "reading in recalculated plot titles" [1] "Removed 638 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 797 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:54:32 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 = -449.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.2" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.29 O2 = -551.1" [1] "Nominal linear calibrations:" [1] "co2scl = 0.444 co2off = 381.25 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 5.01 minutes" [1] "Average Cal: 5.01 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 3 [3,] 4 6 [4,] 7 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 4 4 63 67 0.1000493 0.1063084 0.1056130 2 43.00482 -44.97811 5 3 68 71 0.1111767 0.1132628 0.1174356 2 18.95391 32.05621 8 2 177 181 0.3086894 0.3114712 0.3107756 1 -26.80954 113.59213 12 2 331 335 0.5138727 0.5166544 0.5159591 3 -26.84433 116.34119 13 4 336 341 0.5201319 0.5236088 0.5225657 3 42.88112 -48.65106 14 3 342 347 0.5270862 0.5305636 0.5323021 3 18.97045 23.52822 17 4 528 533 0.7218138 0.7252911 0.7242481 2 42.90886 -40.86683 18 2 534 538 0.7294640 0.7322455 0.7315501 2 -27.35263 119.23055 21 2 730 733 0.9276938 0.9297801 0.9294323 2 -27.49544 109.11902 22 4 734 739 0.9366453 0.9401227 0.9390795 2 42.81216 -46.43377 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.301832 1.284037 0.015033102 -2.9043220 0.017151664 2.908134 5 1.301394 1.283546 0.008176258 1.7113871 0.005789437 7.087255 8 1.298443 1.280456 -0.018002622 4.8330503 0.019442055 4.840753 12 1.296964 1.278816 -0.024031507 -2.6640138 0.024144207 2.689256 13 1.296617 1.278485 -0.005966883 -2.2458767 0.008645206 3.579748 14 1.296639 1.278554 0.002789189 0.4358904 0.004765702 1.543173 17 1.296546 1.278485 0.007196158 -2.5535951 0.009452785 4.333035 18 1.296449 1.278341 -0.001965860 3.5368281 0.002451881 3.543313 21 1.301056 1.283191 -0.009110196 -2.0311722 0.006452349 1.438590 22 1.301156 1.283334 0.005229752 -1.9602880 0.008069441 2.703983 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.4 co2l1 = 0.439 co2l0 = 0.201" [1] "co2l0 = -102.21 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "50 out of 395 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "345 out of 651 1-min values rejected as stack air" [1] "63 out of 287 Line 1 1-min values rejected as stack air" [1] "282 out of 364 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"