[1] "2025-04-30 01:08:26 MDT" [1] "1601" "160126" "d026" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160126a.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] "2025-04-30 01:08:30 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.892, ave o2scale2 = 0.789" [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] "127 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.892, ave o2scale2 = 0.789" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "129 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:08:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:08:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:08:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:08:50 MDT" [1] "reading in recalculated plot titles" [1] "Removed 129 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1307 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:08:52 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.948 co2off = 400.64 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.38 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 79 88 0.05874306 0.06500582 0.06257027 3 -21.101562 493.6034 3 4 89 98 0.06570139 0.07196415 0.06952971 3 1.591430 380.6659 4 3 99 108 0.07265972 0.07891904 0.07787588 3 -11.971352 486.0903 6 4 376 385 0.26743652 0.27369569 0.27126166 2 1.598414 385.3558 7 2 386 395 0.27439129 0.28065064 0.27821671 2 -21.112141 499.8394 9 2 669 676 0.47761762 0.48249670 0.48075103 3 -21.153021 495.8709 10 4 677 686 0.48319760 0.48947705 0.48703492 3 1.545945 380.7640 11 5 687 696 0.49017373 0.49644430 0.49540101 NA -11.386750 451.9533 12 3 697 706 0.49713990 0.50339931 0.50235595 3 -12.014266 485.9896 14 4 962 971 0.68505781 0.69132063 0.68888548 2 1.480297 381.0971 15 2 972 976 0.69201620 0.69479832 0.69410289 2 -21.225937 501.7836 17 2 1194 1201 0.89377321 0.89864193 0.89690324 3 -21.333437 496.2764 18 4 1202 1207 0.90072821 0.90698831 0.90594499 3 1.372797 374.9860 19 3 1208 1212 0.90768573 0.91395087 0.91603725 3 -12.183850 479.6556 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.126319 1.272860 1.699368e-03 0.52434130 0.005102630 2.9794668 3 1.126132 1.272660 7.807987e-04 0.58355897 0.002273301 3.3638001 4 1.126136 1.272678 8.240351e-04 2.50324124 0.003650608 3.4030718 6 1.126147 1.273377 -4.677113e-05 0.15438296 0.004060087 2.0094925 7 1.125969 1.273205 -3.069996e-03 0.09906758 0.007805372 3.9470095 9 1.123448 1.270541 6.471218e-04 1.83239942 0.001319722 3.6420267 10 1.123283 1.270371 3.406247e-03 1.09851424 0.008414316 3.5083639 11 1.123167 1.270272 -2.496359e-03 -0.61440155 0.001767767 0.8190761 12 1.122987 1.270078 1.543726e-03 -0.66853701 0.004738914 0.9016690 14 1.118296 1.265014 1.187576e-03 2.29384354 0.003617410 6.1926325 15 1.118302 1.264816 -3.151806e-03 5.47105884 0.003797100 5.4922693 17 1.112924 1.259106 6.810443e-04 1.23006593 0.002233271 2.9711090 18 1.112715 1.258829 -1.840738e-03 -3.08710159 0.003256554 5.2338369 19 1.112693 1.259000 1.813369e-03 -2.64102924 0.006966149 7.1262420 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.739 co2l1 = 0.947 co2l0 = 0.001" [1] "co2l0 = -198.83 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "39 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "106 out of 1143 1-min values rejected as stack air" [1] "106 out of 1143 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"