[1] "2025-04-29 17:39:50 MDT" [1] "1301" "130110" "d010" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130110a.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 17:39:54 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.776, ave o2scale2 = 0.783" [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] "22 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.776, ave o2scale2 = 0.783" [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] "22 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:39:54 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:39:54 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:40:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:40:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 22 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1287 row(s) with high PFRIDGE" [1] "TEMP: 119 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:40:28 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 = -448.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.405 co2off = 372.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.1 minutes" [1] "Average Cal: 67.1 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 299.25 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 5 [4,] 6 7 [5,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 10 0.1230316 0.1292963 0.1268585 1 66.875648 46.52934 3 4 31 40 0.3384363 0.3446992 0.3422646 2 66.859055 43.39229 4 3 41 50 0.3453947 0.3516544 0.3506111 2 40.486547 111.51655 5 4 51 60 0.5400269 0.5463473 0.5438894 2 66.926430 46.80515 6 2 61 80 0.5470488 0.7548623 0.6624617 2 -9.219465 205.24667 7 4 81 90 0.7555643 0.7618808 0.7594248 2 66.996469 47.23742 8 3 91 100 0.7625822 0.7688929 0.7678413 2 40.616188 116.19163 9 4 101 110 0.9570017 0.9633217 0.9608620 2 67.091742 46.07293 10 2 111 119 0.9640232 0.9703468 0.9680395 2 -9.759375 212.37092 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.287357 1.275437 5.678817e-03 0.444859212 0.017303551 1.304874 3 1.289803 1.278007 4.563324e-05 0.014575864 0.009549065 0.896918 4 1.289598 1.277764 -5.236121e-03 1.650596219 0.013220602 2.194839 5 1.290295 1.278489 3.066627e-03 -0.648018625 0.009448311 2.205698 6 1.290624 1.278886 -1.330518e-04 -0.003911578 0.679800181 5.069920 7 1.290303 1.278600 6.865656e-03 -1.321991943 0.017528484 3.780553 8 1.290411 1.278725 9.446992e-04 0.839092071 0.005162861 1.908986 9 1.289357 1.277628 -5.699941e-04 1.111510555 0.011079987 2.974867 10 1.289830 1.277610 5.801812e-03 -0.058267114 0.018464105 8.538571 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.688 co2l1 = 0.398 co2l0 = 0" [1] "co2l0 = -122.74 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"