[1] "2025-04-29 22:57:43 MDT" [1] "1501" "150125" "d025" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150125a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85620 63 [1] 85620 [1] 85620 [1] "testing skipping spike filter" [1] 85620 [1] 85620 [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 22:57:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.769" [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] "101 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.769" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "103 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:57:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:57:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:58:04 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:58:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 103 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1323 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:58:10 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.937 co2off = 398.08 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.06 minutes" [1] "Average Cal: 8.65 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.13 minutes" [1] "Removed 1 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 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 141 150 0.09991088 0.1061743 0.1037397 3 -16.891648 275.8850 3 4 151 160 0.10686982 0.1131362 0.1106990 3 12.587039 133.5023 4 3 161 170 0.11383218 0.1200949 0.1190501 3 2.713125 208.5284 6 4 417 425 0.30935538 0.3149232 0.3128353 2 12.503116 137.7030 7 2 426 433 0.31561852 0.3204907 0.3187506 2 -16.975906 275.1127 9 2 660 669 0.51725718 0.5235810 0.5211215 3 -17.055570 281.4232 10 4 670 678 0.52428359 0.5299040 0.5277940 3 12.419071 131.6697 12 3 687 696 0.53833455 0.5446610 0.5436081 3 2.541227 212.0215 14 4 943 950 0.72610764 0.7324282 0.7306724 2 12.417885 124.9774 15 2 951 960 0.73313102 0.7394693 0.7369998 2 -17.067789 279.7796 17 2 1233 1242 0.93491105 0.9412326 0.9387746 3 -16.963477 281.6206 18 4 1243 1252 0.94193582 0.9482679 0.9458017 3 12.515898 132.8816 19 3 1253 1262 0.94897697 0.9552952 0.9542416 3 2.646375 215.5978 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.179335 1.306386 0.0010577858 -0.337438726 0.004744350 3.494710 3 1.179069 1.306080 0.0007682172 0.961022586 0.004922948 3.800552 4 1.179039 1.305899 -0.0023585176 -5.069740618 0.006766432 6.788866 6 1.174719 1.301282 -0.0007122129 -1.755918433 0.002148591 4.786436 7 1.174725 1.301251 -0.0028906072 -1.989860065 0.006655913 6.891695 9 1.169872 1.295739 -0.0016816069 0.311321964 0.005152955 6.469220 10 1.169769 1.295636 0.0005509753 0.964224558 0.003187588 4.675268 12 1.169725 1.295537 0.0005603192 3.468279605 0.004594972 4.904276 14 1.170456 1.296315 0.0019935790 -4.004388228 0.003874076 12.427568 15 1.170586 1.296463 -0.0036629876 -2.735665755 0.011523556 8.416238 17 1.175747 1.302356 0.0003656767 -0.005937321 0.001868124 2.589019 18 1.175774 1.302363 0.0033315123 0.318491642 0.008836810 2.498713 19 1.175992 1.302621 -0.0016953366 -2.667294438 0.004405886 4.325010 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.543 co2l1 = 0.937 co2l0 = 0.003" [1] "co2l0 = -142.48 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "170 out of 540 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "370 out of 1149 1-min values rejected as stack air" [1] "370 out of 1149 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"