[1] "2025-04-30 02:57:09 MDT" [1] "1704" "170517" "d137" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170517a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 02:57:13 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.864, ave o2scale2 = 0.891" [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] "63 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.864, ave o2scale2 = 0.891" [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] "65 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:57:14 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:57:14 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:57:33 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:57:35 MDT" [1] "reading in recalculated plot titles" [1] "Removed 65 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1339 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:57:37 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 = 4.475 co2off = 368.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.38 minutes" [1] "Shortest Cal: 2.05 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 3 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 8 [4,] 9 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 73 81 0.05328464 0.05897384 0.05684028 3 5.765241 336.0163 3 4 82 90 0.05968519 0.06538270 0.06324708 3 8.497429 169.0227 5 3 100 108 0.07249740 0.07818854 0.07747709 3 4.976714 325.6983 7 4 365 373 0.26126435 0.26696895 0.26483437 2 8.483089 173.2252 8 2 374 382 0.26768038 0.27338927 0.27124533 2 5.756955 333.9230 10 2 657 665 0.46919363 0.47489320 0.47275637 3 5.752687 333.5136 11 4 666 674 0.47560454 0.48129537 0.47916114 3 8.471804 170.7968 12 3 675 683 0.48200891 0.48770298 0.48699168 3 4.962750 319.0221 14 4 928 932 0.67781279 0.68065770 0.67994628 1 8.530458 172.8712 18 2 1179 1187 0.88497760 0.89066866 0.88853425 3 5.843812 335.2999 19 4 1188 1196 0.89138012 0.89708058 0.89494640 3 8.567973 171.0452 20 3 1197 1205 0.89779222 0.90349193 0.90277766 3 5.036518 318.9764 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.152417 1.117979 0.0006909130 1.90364243 0.0024972455 4.5108620 3 1.152550 1.118030 0.0004540703 0.95733987 0.0017745409 2.4107377 5 1.153234 1.118630 -0.0003399405 -0.08499317 0.0019090168 0.4309188 7 1.159369 1.124840 0.0002636292 1.49965908 0.0009552876 4.2157638 8 1.159540 1.124922 -0.0013278398 0.34766319 0.0030090390 3.7454436 10 1.161138 1.126263 0.0008537833 1.75661604 0.0024281337 3.9611335 11 1.161152 1.126190 0.0009587301 1.89574633 0.0025836093 5.0701358 12 1.161270 1.126444 -0.0003988251 2.03988092 0.0010867334 2.0897686 14 1.158701 1.123414 0.0009151186 -1.63382281 0.0011614467 1.7086941 18 1.155449 1.120169 0.0017866095 1.53604236 0.0042849361 4.5161990 19 1.155242 1.119898 0.0008628614 1.05853725 0.0022290276 2.8267264 20 1.154876 1.119670 -0.0017672273 -1.20412881 0.0041629746 1.5410265 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 371.012 co2l1 = 4.468 co2l0 = -0.14" [1] "co2l0 = -162.81 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "41 out of 99 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "58 out of 1159 1-min values rejected as stack air" [1] "58 out of 1159 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"