[1] "2025-04-29 19:53:58 MDT" [1] "1312" "131127" "d331" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131127a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 19:54:02 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.826, ave o2scale2 = 0.749" [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] "32 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.826, ave o2scale2 = 0.749" [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] "32 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:54:02 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:54:02 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:54:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:54:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 32 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1402 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:54:31 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 = -446.4" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.2" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [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 = 0.439 co2off = 373.91 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.44 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 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 111 120 0.07789598 0.08415891 0.08172489 2 31.76233 208.3600 3 2 121 130 0.08485425 0.09111363 0.08867971 2 -15.95032 298.3576 6 2 410 418 0.28726487 0.29282839 0.29074193 3 -15.44214 295.8110 7 4 419 428 0.29352370 0.29978356 0.29734912 3 31.84368 208.6793 8 5 429 438 0.30047905 0.30673791 0.30569484 NA 24.20956 191.2532 9 3 439 447 0.30743383 0.31299725 0.31230189 3 56.61213 135.6596 11 4 706 714 0.49592839 0.50149306 0.49940639 2 31.87760 216.2888 12 2 715 720 0.50218831 0.50566560 0.50462224 2 -15.17381 299.0367 15 2 998 1007 0.70401849 0.71027760 0.70784331 3 -14.83813 295.9068 16 4 1008 1017 0.71097300 0.71723608 0.71480177 3 31.97123 209.8731 17 3 1018 1026 0.71793154 0.72349566 0.72280029 3 56.42364 123.7415 20 4 1281 1290 0.91270503 0.91896427 0.91653030 2 31.80211 210.0376 21 2 1291 1300 0.91965981 0.92591988 0.92348562 2 -15.06245 285.2650 22 5 1301 1310 0.92661528 0.93287497 0.93183152 NA 24.68472 194.7419 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.215377 1.339503 -0.0071012202 -0.64684264 0.018854937 3.9857431 3 1.215224 1.339331 0.0024746631 -0.12244501 0.008886150 2.6134244 6 1.211311 1.335021 -0.0044753949 0.36505517 0.010117391 0.8851299 7 1.211230 1.334980 -0.0001443724 0.22189988 0.013885430 2.0804419 8 1.211073 1.334846 -0.0550561798 0.80671561 0.038979261 1.1435113 9 1.210934 1.334759 0.0030736130 1.79595598 0.007949255 1.9467229 11 1.209547 1.333091 -0.0042142440 0.48590446 0.010012938 6.5737370 12 1.209475 1.333138 -0.0086735827 -1.97095425 0.011999023 2.5588632 15 1.209572 1.332986 0.0124280527 1.70781054 0.037595474 6.9161858 16 1.209544 1.332898 0.0006311973 0.04383314 0.012955614 6.6586854 17 1.209478 1.332898 0.0002477745 -8.69457217 0.006406856 8.7130458 20 1.210349 1.333648 0.0005747861 -0.67450349 0.010657762 6.0234939 21 1.210179 1.333487 -0.0162043931 -2.73509101 0.040890980 8.5695528 22 1.210189 1.333480 -0.0523306582 -0.28268938 0.037078912 7.3759512 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.009 co2l1 = 0.436 co2l0 = 0.143" [1] "co2l0 = -145.3 co2l1 = 0.234" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "132 out of 325 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "193 out of 1212 1-min values rejected as stack air" [1] "146 out of 557 Line 1 1-min values rejected as stack air" [1] "47 out of 655 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"