[1] "2025-04-30 01:37:42 MDT" [1] "1609" "161004" "d278" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161004a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 74275 63 [1] 74275 [1] 74274 [1] "testing skipping spike filter" [1] 74275 [1] 74274 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 01:37:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.982, ave o2scale2 = 0.808" [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] "34 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.982, ave o2scale2 = 0.808" [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] "34 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:37:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:37:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:37:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:37:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 35 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1202 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:38:01 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.9" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.961 co2off = 407.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.98 minutes" [1] "Average Cal: 7.11 minutes" [1] "Shortest Cal: 0 minutes" [1] "Longest Cal: 8.42 minutes" [1] "Removed 3 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 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 177 184 0.1524986 0.1580759 0.1560618 2 -8.264208 -52.14843 3 2 185 191 0.1588943 0.1635937 0.1620395 2 -30.720625 72.60147 5 2 434 441 0.3610823 0.3667712 0.3647392 3 -30.599167 52.40083 6 4 442 448 0.3683771 0.3732648 0.3716379 3 -8.150000 -62.91481 8 3 457 464 0.3805024 0.3861503 0.3857463 3 -21.540437 49.39277 11 2 696 703 0.5756833 0.5813394 0.5793209 1 -30.383271 54.86754 13 2 936 941 0.7795776 0.7837158 0.7824813 3 -30.248234 35.79741 14 4 942 949 0.7845329 0.7903820 0.7882999 3 -7.805260 -52.18988 15 3 950 957 0.7911811 0.7969325 0.7965203 3 -21.212771 51.04533 17 4 1186 1193 0.9857633 0.9912640 0.9892829 2 -7.620781 -60.82152 18 2 1194 1201 0.9920340 0.9974560 0.9955145 2 -30.044677 59.69127 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.013554 1.232780 -3.749092e-03 0.8546135 0.0094010194 5.8846546 3 1.013661 1.233100 -3.626157e-03 1.6935957 0.0071883152 9.4843574 5 1.015496 1.235601 -6.890334e-04 -6.0499930 0.0047262013 17.0299072 6 1.015342 1.235542 -3.194911e-04 4.0385806 0.0031786028 7.8378425 8 1.015805 1.235976 1.601170e-04 1.0683849 0.0029567190 0.8790433 11 1.018752 1.239280 -5.220368e-03 2.0058009 0.0115441183 5.4031731 13 1.021891 1.242300 -4.684689e-05 -14.2345753 0.0003898952 27.1991860 14 1.021678 1.242257 -9.151105e-04 -2.1153807 0.0050493528 15.0627649 15 1.022100 1.242567 -2.700923e-04 -18.6656088 0.0045654386 15.6689125 17 1.026184 1.247324 -2.792291e-03 -0.2135467 0.0066380473 1.1884031 18 1.026356 1.247528 -2.230241e-03 0.5934519 0.0062347836 4.0828673 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 413.797 co2l1 = 0.958 co2l0 = 0.065" [1] "co2l0 = -103.76 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "100 out of 1045 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "945 out of 1070 1-min values rejected as stack air" [1] "945 out of 1070 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "untarring JGOFS directory for this cruise" [1] "making html"