[1] "2025-04-29 17:26:00 MDT" [1] "1213" "121203" "d338" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121203a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 70226 63 [1] 70226 [1] 70226 [1] "testing skipping spike filter" [1] 70226 [1] 70226 [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 17:26:03 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.789" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "357 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.789" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "356 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:26:03 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:26:03 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:26:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:26:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 356 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 218 manually filtered row(s) from a calbreak period" [1] "Removed 2 row(s) with variable TFCELL" [1] "Removed 3 row(s) with LiCO2A spikes in them" [1] "TEMP: 590 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:26:14 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 = -449.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626" [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 = 0.273 co2off = 369.41 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 5.01 minutes" [1] "Average Cal: 5.12 minutes" [1] "Shortest Cal: 0 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 3 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 6 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 4 4 127 131 0.4050121 0.4077940 0.4070984 2 76.94419 50.33121 5 2 132 136 0.4105756 0.4133576 0.4126621 2 -36.20265 200.38943 8 2 330 335 0.6129705 0.6164481 0.6154047 2 -40.07553 202.51585 9 4 336 345 0.6171435 0.6234028 0.6209686 2 75.30348 40.56256 13 4 573 582 0.8188843 0.8251440 0.8227094 2 75.27123 45.19019 14 2 583 589 0.8258394 0.8300122 0.8286214 2 -38.55767 198.99031 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.283663 1.267599 0.004367874 3.1075739 0.004534159 3.139145 5 1.283732 1.267568 -0.003806528 3.8276811 0.003983527 3.849782 8 1.283785 1.267636 0.010270568 0.6821826 0.013924882 2.026501 9 1.283792 1.267664 0.008487788 -1.1437306 0.034151542 3.449621 13 1.284656 1.269157 -0.005965279 1.0833687 0.018755408 4.971086 14 1.284530 1.269004 -0.048672652 0.7107130 0.078453601 2.949036 [1] "Broke calibration interpolation before 0.833333333333333 and after 1" [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.712 co2l1 = 0.272 co2l0 = 0" [1] "co2l0 = -122.92 co2l1 = 0.231" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 102 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "62 out of 512 1-min values rejected as stack air" [1] "16 out of 447 Line 1 1-min values rejected as stack air" [1] "46 out of 65 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"