[1] "2025-04-29 20:44:00 MDT" [1] "1402" "140303" "d062" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140303a.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 20:44:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.747" [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] "103 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.747" [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] "104 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:44:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:44:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:44:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:44:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 104 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1332 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:44:27 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.438 co2off = 384.05 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.8 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 38 47 0.02700909 0.03326855 0.03083424 2 58.221117 163.5580 3 2 48 57 0.03396412 0.04022338 0.03778917 2 -5.552695 296.7070 4 5 58 67 0.04091898 0.04718171 0.04613750 NA 31.902969 229.4500 7 2 326 335 0.23571181 0.24197159 0.23953729 2 -5.280641 289.4057 9 3 345 352 0.25032176 0.25518987 0.25484204 2 36.387469 246.4963 11 4 601 610 0.44439821 0.45066131 0.44822524 2 58.059125 160.2301 12 2 611 620 0.45135680 0.45761649 0.45518208 2 -5.127414 305.2974 14 2 872 881 0.65307691 0.65933597 0.65690198 3 -4.902398 303.4841 15 4 882 891 0.66003131 0.66629442 0.66385992 3 58.015289 160.5645 16 5 892 901 0.66698970 0.67324965 0.67220635 NA 32.304156 230.0153 17 3 902 911 0.67394508 0.68020677 0.67916158 3 36.481367 245.8092 19 4 1159 1168 0.86176389 0.86802662 0.86559235 2 57.859211 163.9706 20 2 1169 1178 0.86872222 0.87498148 0.87254718 2 -4.401227 304.4424 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.227942 1.348019 -0.0033880392 3.4110911 0.009887110 12.651056 3 1.227884 1.347983 -0.0061240785 3.7518286 0.018410875 9.793616 4 1.227516 1.347573 -0.0221524253 -4.9643268 0.015688932 6.740628 7 1.223978 1.343734 0.0015673088 -2.2487119 0.009360152 18.969224 9 1.223764 1.343575 0.0003833712 3.1917487 0.002458007 2.260857 11 1.221675 1.341387 -0.0015408698 1.3728245 0.006177346 4.108060 12 1.221731 1.341436 -0.0058368911 1.9557971 0.016202160 5.696123 14 1.217590 1.336935 -0.0054003632 0.1326919 0.014039920 6.147974 15 1.217420 1.336757 0.0012199784 1.6611743 0.017630823 4.679039 16 1.217236 1.336546 -0.0477547963 0.5550972 0.033808543 2.690844 17 1.216864 1.336152 -0.0005450784 -0.5182826 0.015453756 1.641298 19 1.210021 1.328661 0.0056522600 2.0567119 0.016097358 6.118110 20 1.209860 1.328473 -0.0044316329 1.7478256 0.011755790 4.844662 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.84 co2l1 = 0.439 co2l0 = 0.017" [1] "co2l0 = -156.44 co2l1 = 0.25" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "95 out of 260 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "165 out of 1141 1-min values rejected as stack air" [1] "165 out of 1039 Line 1 1-min values rejected as stack air" [1] "0 out of 102 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"