[1] "2025-04-29 22:37:08 MDT" [1] "1411" "141209" "d343" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141209a.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 22:37:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.76" [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] "28 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.842, ave o2scale2 = 0.76" [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] "28 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:37:13 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:37:13 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:37:34 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:37:35 MDT" [1] "reading in recalculated plot titles" [1] "Removed 28 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1408 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:37:41 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 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 400.79 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 191 200 0.1335938 0.1398532 0.1374191 3 -25.773375 532.1086 3 4 201 210 0.1405486 0.1468090 0.1443745 3 3.494570 383.1892 4 3 211 220 0.1475044 0.1537641 0.1527210 3 -6.326547 463.7273 7 4 481 490 0.3422980 0.3485590 0.3461240 2 3.543328 378.1389 8 2 491 500 0.3492544 0.3555136 0.3530793 2 -25.725313 525.1407 12 2 776 785 0.5509988 0.5572581 0.5548241 3 -25.675156 526.5106 13 4 786 795 0.5579538 0.5642130 0.5617789 3 3.588469 381.7608 14 5 796 805 0.5649086 0.5711679 0.5701248 NA -7.405656 449.1195 15 3 806 815 0.5718634 0.5781233 0.5770800 3 -6.196984 472.5592 17 4 1072 1081 0.7596979 0.7659572 0.7635231 2 3.638766 380.2666 18 2 1082 1091 0.7666528 0.7729155 0.7704808 2 -25.605602 529.6480 21 2 1363 1372 0.9683765 0.9746354 0.9722015 3 -25.584430 526.9977 22 4 1373 1382 0.9753311 0.9815903 0.9791564 3 3.674680 380.2111 23 3 1383 1392 0.9822859 0.9885488 0.9875056 3 -6.115062 464.2250 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.181717 1.309221 -0.0024904847 0.3422479515 0.006196737 3.138696 3 1.181654 1.309124 0.0033167263 -0.5437304573 0.008967789 1.927293 4 1.181921 1.309429 -0.0017351106 3.1497110093 0.004571939 4.330510 7 1.184231 1.311923 0.0009490637 1.5758836133 0.002729581 12.356504 8 1.184547 1.312266 -0.0032598863 -0.0002874763 0.008305011 4.042145 12 1.188725 1.316843 0.0013046825 -0.3891114920 0.004236191 4.616393 13 1.188755 1.316886 0.0017728728 2.2212283862 0.005171932 7.454905 14 1.189069 1.317262 -0.0036825899 6.8817042897 0.002607456 9.281771 15 1.189242 1.317470 0.0014767382 4.0444966740 0.004109515 8.398415 17 1.193141 1.321795 -0.0006612972 2.1730857175 0.002395995 6.154757 18 1.193335 1.322014 0.0013175652 0.0052105054 0.008714273 3.377709 21 1.196336 1.325350 0.0011463977 -0.2460375743 0.004217501 2.661151 22 1.196359 1.325381 0.0004719032 0.4400428993 0.003872038 2.907352 23 1.196544 1.325583 0.0016360477 2.9322778606 0.004969326 3.906918 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.851 co2l1 = 0.944 co2l0 = 0" [1] "co2l0 = -195.97 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "36 out of 288 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "252 out of 1218 1-min values rejected as stack air" [1] "195 out of 1076 Line 1 1-min values rejected as stack air" [1] "57 out of 142 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"