[1] "2025-04-29 18:23:56 MDT" [1] "1303" "130404" "d094" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130404a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85459 63 [1] 85459 [1] 85459 [1] "testing skipping spike filter" [1] 85459 [1] 85459 [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 18:24:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.776" [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] "151 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.776" [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] "149 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:24:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:24:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:24:17 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:24:18 MDT" [1] "reading in recalculated plot titles" [1] "Removed 149 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1273 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:24:27 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 = -448.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.255 co2off = 388.1 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.28 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 5 4 232 241 0.2076157 0.2138785 0.2114431 2 90.19483 48.55222 6 2 242 251 0.2145741 0.2208369 0.2184006 2 -34.37216 212.67253 9 2 516 525 0.4164363 0.4226991 0.4202647 3 -35.61332 207.72824 10 4 526 534 0.4233947 0.4296574 0.4270731 3 87.89554 47.37557 11 3 535 544 0.4303528 0.4366155 0.4355723 3 45.49116 115.72766 13 4 767 775 0.6257803 0.6313437 0.6292574 2 86.54504 53.20426 14 2 776 785 0.6320428 0.6383056 0.6358687 2 -36.03209 207.52572 16 2 1042 1049 0.8338335 0.8387059 0.8369672 3 -33.90887 208.85709 17 4 1050 1059 0.8407920 0.8470549 0.8446196 3 86.70809 52.28194 18 5 1060 1069 0.8477501 0.8540098 0.8529663 NA 30.37637 98.65503 19 3 1070 1079 0.8547052 0.8609642 0.8599210 3 45.53640 120.73309 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 5 1.294413 1.286354 -0.013534887 1.3011080 0.03470278 4.535135 6 1.294799 1.286788 -0.001096865 0.8871442 0.04426778 3.885459 9 1.297670 1.289895 -0.006759338 0.6046715 0.02341148 4.232998 10 1.297556 1.289819 0.003737178 -0.2883606 0.01605069 4.235363 11 1.297549 1.289826 -0.005478168 -3.3756416 0.01510891 4.972166 13 1.297999 1.290598 0.002637197 0.4982146 0.01003371 1.813811 14 1.297960 1.290560 0.013578767 -0.2169321 0.04902348 3.009424 16 1.297441 1.289971 -0.009964358 -2.0199197 0.01992584 6.496260 17 1.297949 1.290539 0.005424157 0.5623454 0.02753146 2.607121 18 1.298058 1.290681 -0.217814371 -1.8920551 0.15432605 4.852169 19 1.298188 1.290803 0.002435272 0.8558943 0.02275358 1.973511 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.184 co2l1 = 0.253 co2l0 = 0.166" [1] "co2l0 = -123.63 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 40 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1096 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 1096 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"