[1] "2025-04-29 23:42:52 MDT" [1] "1504" "150420" "d110" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150420a.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 23:42:56 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 0.773" [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] "44 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 0.773" [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] "46 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:42:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:42:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:43:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:43:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 46 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1390 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:43:24 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 = -478.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 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 = 0.953 co2off = 403.02 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.93 minutes" [1] "Shortest Cal: 8.01 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 3 4 238 247 0.1677675 0.1740262 0.1715924 2 -4.245242 123.1662 4 2 248 256 0.1747214 0.1809835 0.1788974 2 -33.263499 264.9811 5 5 257 266 0.1816787 0.1879374 0.1868941 NA -15.198094 187.2540 8 2 514 523 0.3764548 0.3827145 0.3802799 3 -33.222086 269.3573 9 4 524 533 0.3834100 0.3896693 0.3872352 3 -4.222844 122.1123 10 3 534 543 0.3903656 0.3966250 0.3955816 3 -15.699227 215.8426 12 4 813 822 0.5851474 0.5914072 0.5889729 2 -4.208047 122.4105 13 2 823 832 0.5921026 0.5983657 0.5959312 2 -33.204844 266.8210 15 2 1111 1119 0.7945222 0.8000865 0.7980000 3 -33.234125 264.3476 16 4 1120 1129 0.8007819 0.8070416 0.8046069 3 -4.229211 115.5360 17 5 1130 1139 0.8077369 0.8139958 0.8129528 NA -15.155437 185.0034 18 3 1140 1149 0.8146911 0.8209542 0.8199112 3 -15.735234 212.4576 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.162782 1.291189 -0.0003693504 0.8471545 0.002549824 6.4244867 4 1.162427 1.290848 -0.0018596248 -0.6276379 0.006662360 1.8096123 5 1.162280 1.290617 -0.0038071066 0.5946540 0.002695845 0.7702384 8 1.165589 1.294452 -0.0015249538 -0.7831822 0.004578060 2.6143663 9 1.165704 1.294591 0.0006583595 -0.2452644 0.005329018 4.7223773 10 1.166058 1.294979 0.0028237993 1.0467682 0.007599117 1.9543250 12 1.168044 1.297110 0.0023564216 -1.2091357 0.007323957 3.2076507 13 1.168124 1.297200 -0.0038954752 -0.5607360 0.009921399 4.5097773 15 1.166575 1.295394 0.0017964047 1.2739406 0.004304491 3.9583827 16 1.166455 1.295213 0.0012532830 0.7770714 0.004935515 3.8011692 17 1.166379 1.295113 -0.0021223471 -0.1792394 0.001502602 0.4586589 18 1.166122 1.294827 0.0006419434 1.6840002 0.002776606 2.3560011 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.267 co2l1 = 0.952 co2l0 = 0.004" [1] "co2l0 = -140.23 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "36 out of 190 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "154 out of 1221 1-min values rejected as stack air" [1] "153 out of 922 Line 1 1-min values rejected as stack air" [1] "1 out of 299 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"