[1] "2025-04-29 20:35:42 MDT" [1] "1402" "140216" "d047" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140216a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:35:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.804, ave o2scale2 = 0.733" [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] "13 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.804, ave o2scale2 = 0.733" [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] "12 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:35:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:35:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:36:05 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:36:06 MDT" [1] "reading in recalculated plot titles" [1] "Removed 12 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1424 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:36:13 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.405 co2off = 383.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 2 264 273 0.1891146 0.1953741 0.1929400 3 -4.156344 303.9283 1.251068 4 4 274 283 0.1960702 0.2023297 0.1998952 3 65.069758 163.0740 1.250755 5 3 284 293 0.2030248 0.2092847 0.2082413 3 41.308883 243.7509 1.250813 7 4 564 573 0.3978198 0.4040804 0.4016453 2 64.758859 160.5335 1.245589 8 2 574 583 0.4047757 0.4110370 0.4086024 2 -4.059977 301.4146 1.245476 10 2 861 870 0.6065918 0.6128519 0.6104173 3 -3.609461 302.2373 1.239483 11 4 871 878 0.6135475 0.6198068 0.6176046 3 64.354083 157.4666 1.239511 12 5 879 888 0.6205024 0.6267656 0.6257225 NA 38.408125 222.5115 1.239791 13 3 889 898 0.6274613 0.6337208 0.6326776 3 41.065688 242.4797 1.239734 15 4 1159 1168 0.8152889 0.8215486 0.8191144 2 64.119781 155.5705 1.235516 16 2 1169 1178 0.8222442 0.8285072 0.8260732 2 -3.329805 304.7214 1.235617 jfcv2 co2slp o2slp co2sd o2sd 3 1.372562 0.0071874635 1.87080176 0.019938885 5.511265 4 1.372281 -0.0011983720 2.83118524 0.016653521 8.695719 5 1.372317 -0.0050972347 4.11326879 0.015815709 5.784012 7 1.366352 -0.0024109090 0.23972048 0.006466582 6.355528 8 1.366269 0.0052360781 3.84775983 0.016187377 11.229185 10 1.360005 0.0059699483 0.94357883 0.016031670 5.579657 11 1.360029 0.0003975039 3.18809396 0.024353056 13.014113 12 1.360293 -0.0097378277 -0.04934632 0.006894291 3.129058 13 1.360251 -0.0008542956 3.51030453 0.005025160 4.540115 15 1.355826 0.0059983100 0.89788530 0.015420374 6.188971 16 1.355938 -0.0134914269 0.92567293 0.033711311 4.642851 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.171 co2l1 = 0.404 co2l0 = 0" [1] "co2l0 = -148.96 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "138 out of 545 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "407 out of 1282 1-min values rejected as stack air" [1] "407 out of 1259 Line 1 1-min values rejected as stack air" [1] "0 out of 23 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"