[1] "2025-04-30 02:43:22 MDT" [1] "1704" "170417" "d107" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170417a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84120 63 [1] 84120 [1] 84120 [1] "testing skipping spike filter" [1] 84120 [1] 84120 [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 02:43:26 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.08, ave o2scale2 = 0.878" [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] "60 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.08, ave o2scale2 = 0.878" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:43:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:43:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:43:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:43:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 59 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1341 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:43:48 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 = 4.488 co2off = 374.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.19 minutes" [1] "Average Cal: 8.34 minutes" [1] "Shortest Cal: 7.18 minutes" [1] "Longest Cal: 9.24 minutes" [1] "Removed 2 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 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 175 182 0.1261970 0.1311821 0.1293996 3 5.343990 300.0209 0.9281844 3 4 183 190 0.1318934 0.1375842 0.1354495 3 8.064864 151.7068 0.9281032 4 3 191 199 0.1382952 0.1439834 0.1432727 3 4.543295 307.7384 0.9281043 6 4 455 463 0.3339641 0.3396522 0.3375187 2 8.083848 151.5499 0.9272990 7 2 464 472 0.3403678 0.3460561 0.3439229 2 5.368929 320.0517 0.9273252 10 2 724 731 0.5417831 0.5474726 0.5455758 2 5.367989 317.5043 0.9270280 12 3 740 748 0.5545918 0.5602806 0.5595694 2 4.550295 301.2252 0.9269106 14 4 1000 1008 0.7496380 0.7553641 0.7532154 2 8.145437 153.7426 0.9243481 15 2 1009 1017 0.7560758 0.7617706 0.7596343 2 5.411902 320.8406 0.9244602 17 3 1194 1203 0.8937974 0.9002121 0.8991445 3 4.625945 293.3304 0.9208453 18 2 1204 1213 0.9009237 0.9073283 0.9048377 3 5.426320 321.6344 0.9206518 19 4 1214 1222 0.9080483 0.9144521 0.9120123 3 8.160661 146.8716 0.9202623 20 5 1223 1232 0.9151637 0.9215773 0.9205102 NA 6.974688 199.3848 0.9199797 jfcv2 co2slp o2slp co2sd o2sd 2 1.140695 0.0006049403 6.02912079 0.002027705 12.6764445 3 1.140711 0.0024816978 -1.54161838 0.006130468 7.4835503 4 1.140543 -0.0007285357 -1.74708723 0.003845099 1.8136728 6 1.140445 0.0027640813 1.32716281 0.006445773 3.7874718 7 1.140428 0.0006409602 2.56202467 0.001596476 6.5296182 10 1.140401 -0.0008620400 5.07815540 0.004562520 14.8908598 12 1.140339 -0.0014081966 -0.39810413 0.003275086 0.9537408 14 1.138123 0.0038293615 2.96254412 0.008782825 7.2389933 15 1.138203 -0.0012736178 1.78470744 0.003065444 7.1604940 17 1.135243 -0.0007224559 6.72949071 0.002977489 10.2231604 18 1.135040 -0.0001082169 0.16807888 0.003678248 1.8834185 19 1.134646 -0.0008939659 4.25224279 0.003814680 25.6625664 20 1.134347 -0.0003661513 -0.08153648 0.000265165 1.8677115 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.958 co2l1 = 4.441 co2l0 = 0.158" [1] "co2l0 = -161.05 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "87 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "58 out of 1140 1-min values rejected as stack air" [1] "58 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"