[1] "2025-04-29 19:58:37 MDT" [1] "1312" "131205" "d339" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131205a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 19:58:41 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] "117 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] "117 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:58:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:58:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:59:00 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:59:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 117 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1319 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:59:12 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 = 0.445 co2off = 378.59 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 7.86 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 157 165 0.1168090 0.1223732 0.1202864 2 29.27918 208.7813 1.243724 3 2 166 174 0.1230685 0.1286344 0.1265476 2 -17.19300 296.2541 1.243786 5 2 446 454 0.3255095 0.3310730 0.3289869 3 -17.28229 293.0682 1.241275 6 4 455 464 0.3317685 0.3380284 0.3355943 3 29.14927 208.6769 1.241037 7 3 465 473 0.3387238 0.3442879 0.3435925 3 53.47054 133.7271 1.241021 11 4 717 725 0.5342251 0.5397928 0.5377036 2 29.23377 203.8920 1.237652 12 2 726 735 0.5404917 0.5467512 0.5443169 2 -17.27097 298.3298 1.237624 15 2 973 979 0.7429484 0.7471257 0.7457335 2 -17.65699 300.8487 1.235722 16 4 980 988 0.7492119 0.7547797 0.7526933 2 28.93177 208.5473 1.235518 19 4 1253 1261 0.9516332 0.9572016 0.9551135 2 29.00746 210.3166 1.235568 20 2 1262 1270 0.9578979 0.9634617 0.9613751 2 -17.58544 298.3989 1.235689 jfcv2 co2slp o2slp co2sd o2sd 2 1.368014 0.0075089043 0.8473684 0.017039111 2.112558 3 1.367984 0.0079983105 1.8792390 0.018634191 4.296261 5 1.365227 -0.0041281165 0.7747155 0.010416065 5.975818 6 1.364928 -0.0038073847 1.7717694 0.011928261 4.986020 7 1.364839 0.0034298045 -2.5467868 0.008002755 2.860367 11 1.361381 -0.0054662410 -0.8945561 0.012375248 5.275874 12 1.361330 -0.0124801826 1.6412835 0.032128092 5.378468 15 1.359428 -0.0092724004 -0.1267401 0.014871481 3.362867 16 1.359090 -0.0003833596 -0.6880980 0.006150215 1.771774 19 1.359194 -0.0103366931 -0.8327771 0.024450543 3.515234 20 1.359240 -0.0007933745 -0.3566010 0.003640413 2.073320 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.036 co2l1 = 0.443 co2l0 = 0.17" [1] "co2l0 = -142.78 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 735 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "684 out of 1148 1-min values rejected as stack air" [1] "679 out of 1096 Line 1 1-min values rejected as stack air" [1] "5 out of 52 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"