[1] "2025-04-29 17:18:29 MDT" [1] "1212" "121116" "d321" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121116a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 17:18:33 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "659 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "658 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:18:33 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:18:33 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:18:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:18:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 658 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 777 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:19:03 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.42 co2off = 382.19 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 4.01 minutes" [1] "Average Cal: 5.8 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.26 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 29 34 0.03382141 0.03730208 0.03625873 2 67.577000 43.49590 4 2 35 39 0.04009132 0.04287277 0.04217740 2 -6.916979 198.06089 7 2 193 197 0.24400006 0.24678197 0.24608659 2 -6.846792 197.71804 8 4 198 201 0.24956722 0.25165394 0.25130613 2 67.635188 39.83973 12 4 352 355 0.45156479 0.45365098 0.45330334 2 67.642781 37.43875 13 2 356 362 0.45713194 0.46339456 0.46116633 2 -6.523248 198.55657 17 2 509 513 0.66031481 0.66310046 0.66240231 3 -6.261063 207.15759 18 4 514 520 0.66588194 0.67214468 0.66949986 3 67.569160 41.90685 19 3 521 526 0.67284028 0.67910295 0.67945064 3 42.197453 105.34311 22 4 673 677 0.86781687 0.87059838 0.86990290 2 67.483021 36.15146 23 2 678 684 0.87477532 0.88103819 0.87881109 2 -6.032173 199.42832 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.304478 1.287272 -0.0060029231 0.08608082 0.0080827427 0.5988109 4 1.304585 1.287321 0.0023406292 2.77450988 0.0023554569 2.7784844 7 1.307333 1.290508 -0.0031519118 -2.90029387 0.0031575389 2.9462001 8 1.307301 1.290380 0.0043677205 0.36871237 0.0030935922 0.2611535 12 1.304555 1.287530 0.0009363686 -2.44433056 0.0006629126 1.7304912 13 1.304684 1.287583 -0.0059935373 0.34089362 0.0214362246 1.4924355 17 1.296469 1.279000 0.0028011003 -1.89050257 0.0028456381 2.1568097 18 1.296111 1.278590 0.0012097972 1.30558611 0.0138242518 4.2644985 19 1.295375 1.277719 0.0081358809 -17.17929793 0.0259352848 12.1637949 22 1.289120 1.271121 0.0066465890 -1.36111134 0.0069614826 1.8590329 23 1.289169 1.271048 -0.0024759095 -0.52072220 0.0117003637 2.4200343 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.053 co2l1 = 0.419 co2l0 = 0.031" [1] "co2l0 = -121.14 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "76 out of 263 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "187 out of 643 1-min values rejected as stack air" [1] "126 out of 571 Line 1 1-min values rejected as stack air" [1] "61 out of 72 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"