[1] "2025-04-29 16:55:40 MDT" [1] "1210" "120925" "d269" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120925a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 82390 63 [1] 82390 [1] 82390 [1] "testing skipping spike filter" [1] 82390 [1] 82390 [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 16:55:44 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.778" [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] "365 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.778" [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] "363 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:55:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:55:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:55:50 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:55:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 363 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 274 row(s) with low FLWTA" [1] "TEMP: 733 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:55:55 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 = -551.2" [1] "Nominal linear calibrations:" [1] "co2scl = 0.439 co2off = 381.45 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 7.74 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 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 5 [3,] 6 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 12 21 0.01183981 0.01810081 0.01566670 2 42.98570 -44.39096 4 2 22 27 0.02158215 0.02505909 0.02401596 2 -27.78623 114.92890 7 2 246 253 0.22198380 0.22685544 0.22511488 3 -27.79270 114.43446 8 4 254 259 0.22755093 0.23381464 0.23137841 3 42.88553 -42.37334 9 3 260 269 0.23451004 0.24077260 0.23972690 3 18.59839 23.81571 12 4 478 484 0.43143290 0.43560949 0.43421861 2 43.03981 -38.87999 13 2 485 491 0.43630480 0.44256768 0.44034098 2 -27.87784 111.64050 17 2 697 705 0.63888773 0.64445541 0.64236795 2 -26.79813 116.47526 18 4 706 715 0.64515072 0.65141345 0.64897858 2 43.12409 -46.92180 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.303244 1.285362 -0.0018744067 1.124419 0.011979090 4.007140 4 1.303402 1.285523 -0.0028648142 2.383815 0.003927857 3.282600 7 1.304169 1.286290 -0.0019812491 1.789186 0.005172405 3.595907 8 1.304148 1.286293 0.0073025401 1.509990 0.029754398 5.725934 9 1.304484 1.286658 0.0057280766 2.623919 0.015356433 3.610055 12 1.306877 1.289134 -0.0009048127 2.854990 0.003056435 4.982933 13 1.306864 1.289186 -0.0075938146 1.196058 0.028444871 4.031878 17 1.310256 1.292749 0.0380912481 2.148570 0.083286571 6.373499 18 1.310160 1.292622 0.0036039197 -1.268194 0.013451133 4.096323 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.446 co2l1 = 0.44 co2l0 = 0.221" [1] "co2l0 = -102.64 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "26 out of 394 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "368 out of 589 1-min values rejected as stack air" [1] "3 out of 201 Line 1 1-min values rejected as stack air" [1] "365 out of 388 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"