[1] "2025-04-29 23:03:39 MDT" [1] "1501" "150205" "d036" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150205a.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] "2025-04-29 23:03:43 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.835, ave o2scale2 = 0.755" [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] "106 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.835, ave o2scale2 = 0.755" [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] "106 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:03:43 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:03:43 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:04:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:04:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 107 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1328 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:04:08 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.938 co2off = 387.64 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.3 minutes" [1] "Shortest Cal: 4.01 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 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 144 153 0.1026944 0.1089578 0.1065236 2 12.457219 130.8663 3 2 154 163 0.1096532 0.1159161 0.1134812 2 -16.970523 279.1230 4 5 164 173 0.1166115 0.1228749 0.1218316 NA 1.220531 193.1750 6 2 415 423 0.3121332 0.3177007 0.3156115 3 -16.895929 275.0767 7 4 424 433 0.3183960 0.3246591 0.3222232 3 12.542805 129.6182 8 3 434 443 0.3253545 0.3316176 0.3305745 3 2.683086 209.0902 10 4 706 715 0.5201949 0.5264581 0.5240229 2 12.525352 130.0351 11 2 716 720 0.5271534 0.5299387 0.5292429 2 -16.891542 278.9448 13 2 990 999 0.7289962 0.7352592 0.7328217 3 -16.924992 272.7836 14 4 1000 1008 0.7359546 0.7415181 0.7394317 3 12.509509 132.5049 16 3 1016 1025 0.7498753 0.7561383 0.7550952 3 2.646648 217.3059 18 4 1242 1248 0.9377280 0.9439908 0.9425976 2 12.441031 128.9074 19 2 1249 1258 0.9446875 0.9509502 0.9485136 2 -16.999930 283.5234 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.195093 1.321576 -0.0003194346 1.3941503 0.0014283482 9.3373979 3 1.195415 1.321918 -0.0006560902 0.8944207 0.0046845750 4.2862780 4 1.195532 1.322080 -0.0013104797 -0.7188897 0.0009280777 1.7972829 6 1.200361 1.327458 -0.0003647175 1.7927903 0.0023439385 6.5777352 7 1.200629 1.327727 0.0015038192 -1.8641504 0.0060731623 5.2030941 8 1.201073 1.328235 0.0011477247 0.5749296 0.0047979182 1.7421741 10 1.201600 1.328891 0.0014764025 0.5425732 0.0037489489 2.6791902 11 1.201911 1.329121 -0.0063933372 -1.1588546 0.0069614826 1.2883158 13 1.198951 1.325769 -0.0012881213 0.9519038 0.0036441057 3.4489468 14 1.198749 1.325503 0.0039048186 3.5775479 0.0100611042 8.3804022 16 1.198361 1.325122 -0.0014085866 0.5662998 0.0044838422 0.7555902 18 1.194516 1.320829 0.0052758677 -3.4696608 0.0085082854 5.6147517 19 1.194543 1.320832 -0.0039907811 0.6868341 0.0102187261 4.2221656 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.518 co2l1 = 0.938 co2l0 = 0.004" [1] "co2l0 = -141.96 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "5 out of 5 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1149 1-min values rejected as stack air" [1] "0 out of 1149 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"