[1] "2025-04-29 19:41:31 MDT" [1] "1311" "131031" "d304" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131031a.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 19:41:35 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.734" [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] "49 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.807, ave o2scale2 = 0.734" [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] "49 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:41:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:41:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:41:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:41:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 50 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 8 row(s) with low FLSP" [1] "TEMP: 1379 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:42:05 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -446.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.3" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.3" [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 = 0.429 co2off = 377.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.93 minutes" [1] "Shortest Cal: 8.01 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,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 197 206 0.1370889 0.1433484 0.1409141 2 34.13579 207.7143 1.231635 3 2 207 216 0.1440439 0.1503030 0.1478687 2 -14.03141 296.4792 1.231934 5 2 485 494 0.3458182 0.3520775 0.3496433 3 -14.47518 296.6247 1.239228 6 4 495 504 0.3527731 0.3590358 0.3566011 3 33.91477 209.1883 1.239154 7 3 505 514 0.3597313 0.3659941 0.3649508 3 59.27891 137.2477 1.239508 9 4 760 769 0.5545808 0.5608403 0.5584059 2 33.88926 204.5464 1.243846 10 2 770 778 0.5615359 0.5670995 0.5650130 2 -14.62236 300.1920 1.244013 12 2 1047 1056 0.7632654 0.7695249 0.7670908 3 -14.08548 294.9132 1.241737 13 4 1057 1066 0.7702202 0.7764838 0.7740484 3 33.97333 214.1834 1.241432 14 3 1067 1076 0.7771794 0.7834387 0.7823954 3 59.10623 123.0153 1.241185 16 4 1341 1350 0.9719548 0.9782140 0.9757797 2 33.93794 203.4866 1.239193 17 2 1351 1360 0.9789095 0.9851690 0.9827347 2 -14.14327 288.2385 1.239442 jfcv2 co2slp o2slp co2sd o2sd 2 1.354408 -0.0069977727 -2.0119448 0.019012564 5.899983 3 1.354680 -0.0035080701 -1.2640342 0.009506224 5.749440 5 1.363557 -0.0008031599 -0.4828526 0.012468462 1.663568 6 1.363468 0.0024667456 2.5814565 0.007888222 7.350171 7 1.363882 0.0006247241 -4.4186329 0.007087144 6.707830 9 1.368538 -0.0025279717 -0.8210201 0.009150005 4.522587 10 1.368660 -0.0073682496 -2.0464948 0.021735918 6.457107 12 1.366021 0.0004316964 -0.7709706 0.007096036 5.629408 13 1.365671 0.0037519078 -0.4863003 0.010377192 4.485736 14 1.365385 -0.0022754623 -2.6887011 0.008638055 4.330023 16 1.362985 -0.0091008528 0.8834903 0.024074429 5.024534 17 1.363221 0.0048031259 -0.8586399 0.017367860 4.162634 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.422 co2l1 = 0.426 co2l0 = 0.133" [1] "co2l0 = -142.04 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "23 out of 115 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "92 out of 1223 1-min values rejected as stack air" [1] "92 out of 1223 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"