[1] "2025-04-29 19:55:12 MDT" [1] "1312" "131129" "d333" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131129a.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 19:55:16 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.737" [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] "56 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.737" [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] "55 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:55:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:55:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:55:34 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:55:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 55 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1381 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:55:43 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 = 0.434 co2off = 385.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.76 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 206 215 0.1650490 0.1713090 0.1688744 2 31.01245 208.8610 1.229570 3 2 216 225 0.1720043 0.1782650 0.1758296 2 -16.41704 290.9188 1.229634 4 5 226 233 0.1789606 0.1838297 0.1834816 NA 24.10544 195.4961 1.229569 6 2 494 503 0.3737604 0.3800232 0.3775885 3 -16.80610 294.3099 1.233481 7 4 504 513 0.3807187 0.3869784 0.3845443 3 30.79935 208.3707 1.233589 8 3 514 523 0.3876738 0.3939370 0.3928939 3 55.71253 136.7945 1.233680 10 4 789 797 0.5831817 0.5887459 0.5866595 2 30.63739 203.1675 1.234423 11 2 798 807 0.5894411 0.5957004 0.5932664 2 -17.07009 303.7437 1.234577 13 2 1083 1092 0.7912289 0.7974882 0.7950539 3 -17.39533 298.9249 1.235048 14 4 1093 1102 0.7981836 0.8044433 0.8020091 3 30.42731 204.2991 1.234943 15 5 1103 1112 0.8051389 0.8113981 0.8103550 NA 22.84194 186.4431 1.234908 16 3 1113 1122 0.8120937 0.8183566 0.8173136 3 55.47070 125.1168 1.234764 jfcv2 co2slp o2slp co2sd o2sd 2 1.352831 -0.0047784762 -1.0595681 0.013251071 6.501589 3 1.352909 -0.0183383381 -1.8219769 0.046736784 7.503514 4 1.352972 0.0038384322 -6.7991587 0.010871767 4.820552 6 1.357203 -0.0025370901 -1.1080435 0.006637365 5.262801 7 1.357446 0.0067936710 -0.4327041 0.018038492 5.117953 8 1.357622 -0.0045045990 6.1535282 0.012622790 8.003803 10 1.358005 0.0007131855 -1.6122972 0.002366133 18.009761 11 1.358324 -0.0031407127 0.3725874 0.010981312 6.037532 13 1.358947 -0.0118169347 -1.2715083 0.030078279 5.979361 14 1.358896 0.0041991122 0.7258220 0.018855507 6.043962 15 1.358830 -0.0572890664 -1.1616086 0.040570252 3.721198 16 1.358612 -0.0033495297 1.4306536 0.012493067 4.577672 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.64 co2l1 = 0.431 co2l0 = 0.161" [1] "co2l0 = -141.72 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "264 out of 480 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "216 out of 1217 1-min values rejected as stack air" [1] "216 out of 1217 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"