[1] "2025-04-30 02:58:16 MDT" [1] "1704" "170519" "d139" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170519a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 02:58:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.877, ave o2scale2 = 0.905" [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] "72 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.877, ave o2scale2 = 0.905" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "74 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:58:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:58:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:58:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:58:42 MDT" [1] "reading in recalculated plot titles" [1] "Removed 74 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1330 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:58:47 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 = 4.466 co2off = 368 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.76 minutes" [1] "Shortest Cal: 5.12 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 184 192 0.1324124 0.1381033 0.1359689 3 5.936152 334.3098 1.141365 3 4 193 201 0.1388147 0.1445106 0.1423743 3 8.670313 163.6547 1.141942 4 3 202 210 0.1452221 0.1509115 0.1502004 3 5.120536 315.8017 1.142544 6 4 465 473 0.3402882 0.3459839 0.3438495 2 8.635929 170.4965 1.147922 7 2 474 482 0.3466956 0.3523954 0.3502529 2 5.904152 334.8391 1.147800 9 2 748 756 0.5481972 0.5538988 0.5517598 3 5.927741 334.2915 1.144991 10 4 757 764 0.5546105 0.5603003 0.5580483 3 8.672972 166.4065 1.144328 12 3 774 781 0.5674221 0.5731224 0.5727636 3 5.125309 319.4455 1.143465 14 4 1028 1035 0.7560836 0.7617849 0.7597601 2 8.728028 175.1506 1.132822 15 2 1036 1040 0.7624973 0.7660537 0.7653424 2 5.978159 337.8208 1.132543 17 2 1287 1294 0.9646899 0.9696695 0.9678909 3 5.982781 343.9500 1.130933 18 4 1295 1301 0.9703808 0.9746589 0.9732357 3 8.726550 167.5235 1.131268 19 3 1302 1310 0.9767934 0.9824933 0.9817750 3 5.165714 315.9108 1.130855 jfcv2 co2slp o2slp co2sd o2sd 2 1.106598 -0.0016166600 2.0948806 0.0048951051 5.454033 3 1.107127 -0.0008023007 1.8147495 0.0043674041 4.332748 4 1.107894 -0.0030298076 -2.7580204 0.0068111483 3.169603 6 1.112700 -0.0002722992 1.5264363 0.0029735003 3.811552 7 1.112448 0.0013155078 3.5276823 0.0035096328 7.961690 9 1.109117 0.0047728610 4.2139695 0.0111512114 9.516822 10 1.108370 0.0020079825 -0.2113890 0.0049602191 2.607119 12 1.107438 -0.0012967731 4.9579481 0.0034205183 3.622805 14 1.096988 -0.0003210122 2.2663534 0.0010632093 6.493191 15 1.096872 -0.0014232434 4.0112418 0.0016319054 4.108598 17 1.096273 0.0004480094 3.1246211 0.0010772868 6.595948 18 1.096592 0.0016463326 0.3147032 0.0026876453 2.574224 19 1.096318 -0.0002632886 -9.4241350 0.0008568483 9.735331 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 370.508 co2l1 = 4.435 co2l0 = 0.66" [1] "co2l0 = -161.64 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "45 out of 220 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "175 out of 1172 1-min values rejected as stack air" [1] "175 out of 1172 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"