[1] "2025-04-29 22:02:49 MDT" [1] "1408" "140917" "d260" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140917a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85560 63 [1] 85560 [1] 85560 [1] "testing skipping spike filter" [1] 85560 [1] 85560 [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 22:02:53 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.757" [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] "124 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.757" [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] "124 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:02:53 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:02:53 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:03:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:03:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 124 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1300 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:03:18 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.477 co2off = 395.13 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.34 minutes" [1] "Shortest Cal: 5.02 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 1 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,] 6 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 176 181 0.1627501 0.1662373 0.1651905 2 33.18916 140.9120 1.190251 4 3 182 190 0.1669352 0.1725003 0.1718049 2 13.51820 214.9322 1.190167 6 4 447 455 0.3624102 0.3679850 0.3658959 2 32.98979 139.8219 1.188607 7 2 456 465 0.3686806 0.3749399 0.3725057 2 -24.97500 282.4531 1.188568 8 5 466 475 0.3756375 0.3819135 0.3808676 NA 11.34406 193.2583 1.188487 11 2 704 713 0.5701093 0.5763704 0.5739349 3 -25.18302 285.8118 1.184994 12 4 714 723 0.5770665 0.5833404 0.5808980 3 32.77745 145.0489 1.184881 13 3 724 733 0.5840383 0.5903132 0.5892699 3 13.11555 224.6257 1.184829 15 4 998 1007 0.7791378 0.7853988 0.7829636 2 32.71491 136.1087 1.186516 16 2 1008 1017 0.7860945 0.7923577 0.7899216 2 -25.31725 283.6122 1.186620 18 2 1283 1292 0.9877096 0.9939873 0.9915457 2 -25.34403 295.1642 1.189109 19 4 1293 1300 0.9946829 0.9996655 0.9978906 2 32.61980 138.9133 1.189160 jfcv2 co2slp o2slp co2sd o2sd 3 1.323749 0.0019776291 -0.28172478 0.002741227 2.7635923 4 1.323548 -0.0053482071 3.23729131 0.012585873 3.2561896 6 1.321783 0.0015984614 1.96135856 0.005672222 4.4228158 7 1.321789 -0.0011991404 -0.43582659 0.008969256 2.0127626 8 1.321685 -0.0098385155 -0.44973423 0.006982679 0.8704031 11 1.317536 -0.0060952101 1.57558614 0.018147214 6.2406858 12 1.317460 0.0014038409 2.23035317 0.007860420 5.9149179 13 1.317414 -0.0055742881 -0.25332075 0.014102283 0.5784706 15 1.319212 -0.0064832035 2.31411115 0.017321666 6.6863987 16 1.319339 -0.0082680435 -0.12675243 0.021221804 3.2688508 18 1.321890 0.0008043538 1.86134885 0.006974443 7.9023221 19 1.322051 -0.0019796507 -0.02768958 0.013132463 20.0400230 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 388.635 co2l1 = 0.475 co2l0 = 0.095" [1] "co2l0 = -144.67 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "88 out of 330 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "242 out of 1132 1-min values rejected as stack air" [1] "241 out of 821 Line 1 1-min values rejected as stack air" [1] "1 out of 311 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"