[1] "2025-04-29 22:52:28 MDT" [1] "1501" "150113" "d013" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150113a.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 22:52:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.756" [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] "40 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.756" [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] "42 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:52:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:52:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:52:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:52:49 MDT" [1] "reading in recalculated plot titles" [1] "Removed 42 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 119 row(s) with high TFRIDGE" [1] "TEMP: 1275 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:52:54 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 = -477.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.1" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.936 co2off = 391.44 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 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 3 [2,] 4 5 [3,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 422 431 0.3804012 0.3866605 0.3842263 3 -15.693609 277.7873 3 4 432 441 0.3873558 0.3936155 0.3911813 3 13.791375 131.8880 4 3 442 451 0.3943109 0.4005706 0.3995272 3 3.905766 209.6622 6 4 718 727 0.5890753 0.5953348 0.5929008 2 13.776789 133.1562 7 2 728 737 0.5960302 0.6022933 0.5998592 2 -15.711453 281.0734 8 5 738 747 0.6029921 0.6092516 0.6082086 NA 2.614344 191.4562 11 2 1004 1013 0.7977500 0.8040093 0.8015753 2 -15.802266 281.6815 12 4 1014 1023 0.8047049 0.8109676 0.8085329 2 13.686719 130.6793 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.193102 1.324358 -8.766036e-05 -0.2065931 0.003918356 1.383485 3 1.193018 1.324263 9.389951e-04 -0.2488035 0.004936426 2.087951 4 1.193034 1.324301 -1.976787e-04 -0.8412384 0.003574112 1.089743 6 1.192897 1.324399 -3.337880e-03 1.1964721 0.008596351 4.590669 7 1.192946 1.324480 4.576145e-04 -0.5014566 0.005624578 3.104729 8 1.192918 1.324421 -5.430034e-03 4.0171086 0.003844893 5.261023 11 1.190745 1.321832 9.183231e-04 2.8398377 0.002879994 8.155617 12 1.190552 1.321616 1.187915e-03 -1.4928590 0.007627561 7.752991 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 391.364 co2l1 = 0.936 co2l0 = 0.011" [1] "co2l0 = -142.03 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "88 out of 247 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "159 out of 1142 1-min values rejected as stack air" [1] "158 out of 1068 Line 1 1-min values rejected as stack air" [1] "1 out of 74 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"