[1] "2025-04-29 17:08:21 MDT" [1] "1211" "121023" "d297" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121023a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86183 63 [1] 86183 [1] 86183 [1] "testing skipping spike filter" [1] 86183 [1] 86183 [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 17:08:26 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.786, ave o2scale2 = 0.799" [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] "341 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.786, ave o2scale2 = 0.799" [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] "340 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:08:26 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:08:26 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:08:39 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:08:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 340 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 136 manually filtered row(s) from a screenall period" [1] "TEMP: 958 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:08:51 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 = -449.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.3 O2 = -551.3" [1] "Nominal linear calibrations:" [1] "co2scl = 0.451 co2off = 388.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.9 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 87 95 0.1398505 0.1454178 0.1433298 3 -17.21879 118.12805 4 4 96 100 0.1488950 0.1516772 0.1509816 3 51.51040 -34.92980 5 3 101 106 0.1565452 0.1600227 0.1603716 3 27.99344 28.23282 8 4 350 359 0.3485999 0.3548631 0.3524273 2 51.67375 -38.53192 9 2 360 369 0.3555585 0.3618183 0.3593837 2 -17.55410 120.33592 10 5 370 379 0.3625137 0.3687764 0.3677332 NA 20.18403 14.45188 13 2 632 638 0.5573554 0.5636198 0.5609769 3 -16.88716 118.44339 14 4 639 648 0.5643149 0.5705777 0.5681426 3 51.65256 -37.57352 15 3 649 658 0.5712731 0.5775359 0.5764929 3 28.16078 31.53940 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.277533 1.257251 0.0035293283 0.0001158178 0.018237898 3.5757843 4 1.277332 1.257045 0.0082049204 0.4245351302 0.008494560 0.7421231 5 1.277245 1.256965 -0.0076388608 3.9408821122 0.009973141 2.7997448 8 1.275553 1.255241 0.0010044872 0.4828515171 0.006426091 2.9837624 9 1.275280 1.254958 -0.0133046098 -0.1505129120 0.034895218 5.3105902 10 1.274797 1.254455 0.0805733544 0.5730581733 0.057054678 1.3379806 13 1.267461 1.246687 0.0022178214 0.1961475913 0.011084436 0.7846447 14 1.266956 1.246196 -0.0006907834 0.2338274425 0.009473883 1.5639670 15 1.266664 1.245891 0.0090011473 1.7999722377 0.022661794 2.3712976 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.117 co2l1 = 0.451 co2l0 = 0.143" [1] "co2l0 = -103.84 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "39 out of 161 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "122 out of 831 1-min values rejected as stack air" [1] "38 out of 747 Line 1 1-min values rejected as stack air" [1] "84 out of 84 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"