[1] "2025-04-29 19:07:00 MDT" [1] "1306" "130626" "d177" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130626a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85740 63 [1] 85740 [1] 85740 [1] "testing skipping spike filter" [1] 85740 [1] 85740 [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 19:07:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.725" [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] "237 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.725" [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] "239 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:07:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:07:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:07:21 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:07:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 239 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1189 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:07:36 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 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 = 0.313 co2off = 369.21 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.79 minutes" [1] "Shortest Cal: 5.05 minutes" [1] "Longest Cal: 9.12 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 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 228 234 0.1904526 0.1946296 0.1932380 2 -16.44585 245.96617 3 4 235 244 0.1953250 0.2015878 0.1991525 2 49.55654 156.96491 6 4 478 487 0.3969190 0.4032315 0.4007745 2 49.68675 156.32219 7 2 488 493 0.4039330 0.4102446 0.4077909 2 -16.51744 242.50472 10 2 722 728 0.6059375 0.6101454 0.6087439 3 -16.70019 246.10983 11 4 729 738 0.6129540 0.6192674 0.6168118 3 49.42223 156.16864 13 3 745 754 0.6269876 0.6333184 0.6322622 3 84.24038 87.55084 16 4 963 969 0.8164514 0.8206612 0.8192581 2 49.88485 159.38311 17 2 970 978 0.8213623 0.8269708 0.8248671 2 -16.03341 249.27706 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.278394 1.380354 -0.003697622 0.001534605 0.007708381 2.2578640 3 1.278228 1.380090 -0.012698849 0.039327319 0.036204496 2.3522809 6 1.279354 1.381445 -0.002403206 -0.017437989 0.011617941 2.9118637 7 1.279371 1.381519 -0.003758397 1.324041114 0.017501562 6.7490501 10 1.278876 1.381261 -0.029357255 -0.859088265 0.047989012 2.4465488 11 1.278667 1.380935 -0.002313747 -0.349500709 0.008615480 2.1932032 13 1.278766 1.381022 0.009403723 0.025032705 0.023930807 0.4109516 16 1.275857 1.378084 0.014042453 1.577078128 0.022766675 2.8745203 17 1.276014 1.378025 0.018042136 -3.350261530 0.040376384 11.4029843 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.448 co2l1 = 0.312 co2l0 = 0.122" [1] "co2l0 = -132.14 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "68 out of 309 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "241 out of 1064 1-min values rejected as stack air" [1] "213 out of 963 Line 1 1-min values rejected as stack air" [1] "28 out of 101 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"