[1] "2025-04-29 22:31:54 MDT" [1] "1411" "141130" "d334" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141130a.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 22:31:58 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.763" [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] "18 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.763" [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] "18 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:31:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:31:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:32:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:32:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 18 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:32:25 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 = -477.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 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 = 409.03 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.68 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 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 5 [3,] 6 7 [4,] 8 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 237 242 0.1698992 0.1747708 0.1733800 2 4.376187 386.6251 3 2 243 252 0.1761620 0.1824213 0.1799871 2 -24.911078 529.2757 6 2 530 539 0.3778959 0.3841552 0.3817211 3 -25.035305 526.5826 7 4 540 549 0.3848507 0.3911100 0.3886758 3 4.243922 382.0991 8 3 550 559 0.3918055 0.3980648 0.3970215 3 -5.570305 461.5708 10 4 829 838 0.5865613 0.5928206 0.5903863 2 4.130078 381.2115 11 2 839 848 0.5935161 0.5997766 0.5973411 2 -25.163398 528.2368 13 2 1129 1138 0.7952303 0.8014931 0.7990589 3 -25.285195 527.1423 14 4 1139 1148 0.8021886 0.8084514 0.8060168 3 4.016773 377.7314 15 5 1149 1158 0.8091470 0.8154063 0.8143629 NA -6.765531 439.9596 16 3 1159 1168 0.8161019 0.8223609 0.8213176 3 -5.795406 457.3683 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.195102 1.322760 0.0001560900 1.9139550 0.0021764602 5.2296708 3 1.194987 1.322800 -0.0016982468 0.7523903 0.0053081127 2.0355857 6 1.185794 1.312376 -0.0021658252 0.7433348 0.0063678564 2.2963607 7 1.185385 1.311888 0.0015900690 0.6107803 0.0060827396 3.3081214 8 1.185091 1.311595 0.0023277844 0.1855016 0.0071169627 0.6200034 10 1.178600 1.304749 -0.0008142823 3.3376187 0.0042111870 11.2863911 11 1.178728 1.304836 -0.0018872860 0.7993889 0.0052540309 4.6042440 13 1.175006 1.300957 0.0010006981 -1.1500374 0.0044893770 3.9589715 14 1.174877 1.300771 0.0019186163 -0.4532027 0.0049841196 4.3037458 15 1.174862 1.300709 -0.0009359401 -2.4794202 0.0006629126 3.2306534 16 1.174817 1.300657 -0.0011813722 -0.1485077 0.0046311494 3.2832880 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.285 co2l1 = 0.943 co2l0 = 0.001" [1] "co2l0 = -197.13 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "114 out of 160 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "46 out of 1258 1-min values rejected as stack air" [1] "46 out of 1258 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"