[1] "2025-04-29 20:14:13 MDT" [1] "1401" "140112" "d012" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140112a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 20:14:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.749" [1] "Removing 1 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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "68 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.749" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "68 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:14:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:14:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:14:34 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:14:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 69 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1367 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:14:41 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 = -475.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.462 co2off = 383.91 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.32 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 20 29 0.01506250 0.02132743 0.01889194 2 55.823586 155.9659 3 2 30 37 0.02202514 0.02689566 0.02515632 2 -4.387062 301.3050 5 2 297 306 0.22377439 0.23003727 0.22760247 3 -4.159953 296.6616 6 4 307 316 0.23073270 0.23699285 0.23455820 3 55.669461 155.7395 7 3 317 326 0.23768808 0.24394725 0.24290417 3 35.299180 232.9717 9 4 581 587 0.43251982 0.43669332 0.43530207 2 55.584925 154.4978 10 2 588 597 0.43947685 0.44573683 0.44330240 2 -4.163219 300.0552 11 5 598 603 0.44921415 0.45269207 0.45303977 NA 30.154922 224.9887 13 2 859 868 0.64125498 0.64751398 0.64508005 3 -4.073195 302.1062 14 4 869 878 0.64820958 0.65446878 0.65203485 3 55.478883 150.3497 15 3 879 888 0.65516508 0.66142720 0.66038393 3 35.149266 237.2446 17 4 1156 1165 0.84998843 0.85624777 0.85381353 2 55.489211 159.0361 18 2 1166 1175 0.85694332 0.86320231 0.86076815 2 -4.885828 299.4197 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.220732 1.341417 -0.0050420471 3.052318 0.014308033 7.649640 3 1.220598 1.341273 0.0068189228 2.208209 0.013096517 4.610725 5 1.212052 1.331939 0.0042971654 1.496164 0.012620657 7.354204 6 1.211790 1.331718 0.0005017133 1.895570 0.013625653 8.961249 7 1.211864 1.331792 0.0008625018 -1.341318 0.003327617 1.906670 9 1.213426 1.333361 0.0006738627 1.022007 0.002696352 3.072908 10 1.213590 1.333608 0.0119249321 2.454296 0.030029375 6.383804 11 1.213440 1.333473 -0.1503960410 5.992249 0.210958362 4.242986 13 1.213363 1.333421 0.0042654264 2.924352 0.011217485 7.950717 14 1.213335 1.333415 0.0066493245 3.177908 0.019142191 8.510556 15 1.213423 1.333505 -0.0018664709 -1.566010 0.007994959 2.302322 17 1.215079 1.335124 0.0032533337 3.463505 0.013351362 8.881870 18 1.215292 1.335342 0.0077950187 3.491339 0.022040110 9.819194 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.628 co2l1 = 0.461 co2l0 = 0.009" [1] "co2l0 = -147.81 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "86 out of 229 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "143 out of 1194 1-min values rejected as stack air" [1] "143 out of 1194 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"