[1] "2025-04-30 02:58:52 MDT" [1] "1704" "170520" "d140" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170520a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83890 63 [1] 83890 [1] 83890 [1] "testing skipping spike filter" [1] 83890 [1] 83890 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 02:58:56 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.88, ave o2scale2 = 0.908" [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] "113 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.88, ave o2scale2 = 0.908" [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] "113 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:58:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:58:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:59:17 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:59:19 MDT" [1] "reading in recalculated plot titles" [1] "Removed 113 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1284 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:59:23 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.461 co2off = 372.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.44 minutes" [1] "Shortest Cal: 4.1 minutes" [1] "Longest Cal: 8.22 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 [4,] 7 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 188 195 0.1720659 0.1770515 0.1752707 2 8.681240 170.4462 1.133779 3 2 196 203 0.1784761 0.1834683 0.1816847 2 5.943667 338.3232 1.133851 6 2 449 455 0.3805191 0.3862239 0.3843723 2 5.946242 336.3057 1.138185 7 4 456 460 0.3883602 0.3912088 0.3904966 2 8.683729 176.6014 1.137988 10 4 709 717 0.5886334 0.5943349 0.5921966 2 8.678027 170.0862 1.141229 11 2 718 726 0.5950472 0.6007422 0.5986067 2 5.952857 338.5211 1.141475 13 2 1001 1009 0.7967364 0.8024395 0.8002983 3 5.964170 334.8506 1.136703 14 4 1010 1018 0.8031516 0.8088471 0.8067113 3 8.700554 165.6412 1.136465 16 3 1028 1036 0.8159745 0.8216710 0.8209590 3 5.145518 312.9138 1.135961 jfcv2 co2slp o2slp co2sd o2sd 2 1.099221 1.178521e-03 2.781847 0.0036065082 5.595905 3 1.099236 -1.609245e-03 3.197901 0.0034463900 6.347532 6 1.102923 3.986353e-05 1.309462 0.0001734363 3.946111 7 1.102707 6.093882e-04 1.727755 0.0006741121 2.525925 10 1.105074 2.101996e-03 3.301668 0.0047869801 8.084389 11 1.105217 1.491646e-03 1.113311 0.0048093488 3.853188 13 1.099778 9.301177e-04 3.156346 0.0021027370 7.229381 14 1.099482 3.004580e-04 2.193791 0.0012502232 7.197258 16 1.098905 5.439676e-05 -1.720749 0.0009579127 1.930946 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.404 co2l1 = 4.448 co2l0 = 1.265" [1] "co2l0 = -162.59 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 295 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "257 out of 1140 1-min values rejected as stack air" [1] "257 out of 1140 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"