[1] "2025-04-29 23:59:37 MDT" [1] "1505" "150517" "d137" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150517a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86040 63 [1] 86040 [1] 86040 [1] "testing skipping spike filter" [1] 86040 [1] 86040 [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 23:59:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.861, ave o2scale2 = 0.774" [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] "40 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.861, ave o2scale2 = 0.774" [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] "40 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:59:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:59:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:59:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:00:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 40 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1392 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:00:04 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 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 = 1.017 co2off = 483.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.48 minutes" [1] "Shortest Cal: 6.04 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 6 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 228 237 0.1668143 0.1730741 0.1706397 2 -87.43882 481.6819 1.153613 4 3 248 257 0.1807244 0.1869839 0.1859408 2 -78.90087 466.4825 1.153575 6 4 525 534 0.3755224 0.3817813 0.3793474 2 -66.22852 363.2404 1.157070 7 2 535 544 0.3824769 0.3887467 0.3863068 2 -87.45897 475.1950 1.157255 8 5 545 554 0.3894492 0.3957087 0.3946657 NA -78.19656 434.9728 1.157540 10 2 812 821 0.5840567 0.5903415 0.5878962 3 -87.42936 478.7953 1.164287 11 4 822 828 0.5931343 0.5973256 0.5959293 3 -66.22131 367.1116 1.164347 12 3 829 838 0.5980240 0.6043034 0.6032569 3 -78.89085 479.8703 1.164714 14 4 1104 1111 0.7927812 0.7976701 0.7959254 2 -66.22726 363.4249 1.168930 15 2 1112 1119 0.8004618 0.8060451 0.8041839 2 -87.43149 481.0181 1.169313 jfcv2 co2slp o2slp co2sd o2sd 2 1.282465 0.0009264215 2.4739755 0.003315857 10.2407300 4 1.282413 -0.0005006733 1.1648920 0.002104417 1.8192271 6 1.286534 0.0004348159 4.1850847 0.005530348 10.8625676 7 1.286760 -0.0003602819 2.8115944 0.004213605 7.7522891 8 1.287087 -0.0066172798 -0.6212626 0.004684582 0.8322907 10 1.295313 0.0004074412 0.7599182 0.004101359 5.6793238 11 1.295450 0.0008952668 -0.9235146 0.001639360 2.3595059 12 1.295759 0.0031391806 -3.3552059 0.008142148 4.5936941 14 1.300745 0.0023117395 1.3384204 0.005458997 3.1276510 15 1.300959 -0.0011263885 1.7725003 0.002704513 3.8677113 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 473.264 co2l1 = 1.013 co2l0 = 1.85" [1] "co2l0 = -190 co2l1 = 0.206" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "10 out of 10 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1242 1-min values rejected as stack air" [1] "0 out of 1242 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"