[1] "2025-04-29 21:10:30 MDT" [1] "1404" "140502" "d122" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140502a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85716 63 [1] 85716 [1] 85716 [1] "testing skipping spike filter" [1] 85716 [1] 85716 [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 21:10:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.754" [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] "37 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.829, ave o2scale2 = 0.754" [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] "37 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:10:34 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:10:34 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:10:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:10:42 MDT" [1] "reading in recalculated plot titles" [1] "Removed 37 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1389 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:10:45 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 = -476.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.424 co2off = 367.8 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.03 minutes" [1] "Average Cal: 8.09 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.03 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 5 [3,] 6 7 [4,] 8 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 246 254 0.1766234 0.1821875 0.1801009 2 74.064125 127.2704 1.194927 4 2 255 263 0.1828867 0.1884511 0.1863645 2 9.829661 273.9431 1.195050 6 2 545 554 0.3853729 0.3916365 0.3892019 3 9.468734 272.2937 1.205437 7 4 555 563 0.3923317 0.3978992 0.3958115 3 74.450750 133.7503 1.205359 9 3 572 580 0.4069443 0.4125116 0.4118160 3 52.221295 209.1936 1.205631 11 4 840 849 0.5941192 0.6003785 0.5979445 2 74.595898 132.6863 1.209963 12 2 850 859 0.6010741 0.6073372 0.6049030 2 9.325687 273.3922 1.210420 15 2 1066 1072 0.7655319 0.7717897 0.7691470 2 9.234350 265.0420 1.214708 16 4 1073 1081 0.7724881 0.7780715 0.7759692 2 74.822045 132.4456 1.214943 19 4 1343 1352 0.9673372 0.9736050 0.9711680 2 74.872195 128.3007 1.217535 20 2 1353 1362 0.9743003 0.9805633 0.9781289 2 9.183445 275.1762 1.217540 jfcv2 co2slp o2slp co2sd o2sd 3 1.313896 0.008002867 0.8608071 0.018288024 3.165064 4 1.314089 0.002001136 2.7704754 0.010476590 6.776633 6 1.325377 -0.015149026 1.8946845 0.037498062 6.111034 7 1.325257 0.018396832 1.2181807 0.040819486 3.684472 9 1.325670 0.002959553 2.3955269 0.007411783 2.411800 11 1.330207 0.005757160 1.6559236 0.015006544 4.285998 12 1.330726 -0.009839848 1.6015991 0.024945834 5.252554 15 1.335487 -0.005564808 -3.2393326 0.021244284 16.337808 16 1.335883 0.008518732 2.5542461 0.020704981 8.372332 19 1.338723 -0.008414478 1.0721439 0.021519313 3.623700 20 1.338720 -0.009786564 0.1059705 0.025103968 5.502789 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.641 co2l1 = 0.424 co2l0 = -0.191" [1] "co2l0 = -143.25 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "23 out of 75 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "52 out of 1217 1-min values rejected as stack air" [1] "44 out of 1209 Line 1 1-min values rejected as stack air" [1] "8 out of 8 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"