[1] "2025-04-30 03:32:25 MDT" [1] "1708" "170913" "d256" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170913a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 03:32:29 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.547" [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] "170 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.547" [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] "169 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:32:29 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:32:29 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:32:50 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:32:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 169 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1234 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:32:54 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [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 CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.439 co2off = 420.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.19 minutes" [1] "Average Cal: 7.03 minutes" [1] "Shortest Cal: 1.02 minutes" [1] "Longest Cal: 8.21 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 7 [4,] 8 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 171 179 0.1219859 0.1276766 0.1255423 2 -1.360607 169.2562 1.151682 3 2 180 188 0.1283883 0.1340917 0.1319560 2 -4.095857 323.5938 1.151554 6 2 460 468 0.3299331 0.3356269 0.3334921 3 -4.156812 320.2299 1.147805 7 4 469 476 0.3363384 0.3420419 0.3401387 3 -1.407618 167.1287 1.147986 8 3 477 484 0.3427539 0.3477330 0.3473772 3 -4.952281 317.7857 1.148499 10 4 726 732 0.5378674 0.5421465 0.5407205 2 -1.395037 159.0106 1.153327 11 2 733 738 0.5464163 0.5499751 0.5489075 2 -4.138500 322.4395 1.153290 13 2 1006 1014 0.7457907 0.7514916 0.7493510 3 -4.187259 324.2003 1.151308 14 4 1015 1023 0.7522032 0.7578936 0.7557596 3 -1.443330 165.7639 1.150911 16 3 1033 1041 0.7650172 0.7707084 0.7699971 3 -4.969795 306.4887 1.150605 19 2 1214 1218 0.9608266 0.9643843 0.9634357 1 -4.177202 327.6242 1.147335 jfcv2 co2slp o2slp co2sd o2sd 2 0.6521308 5.926017e-04 -0.2034824 0.0018363071 3.432790 3 0.6520034 4.489146e-04 4.3853573 0.0013833620 10.350756 6 0.6474690 -6.600778e-04 -0.1325561 0.0020631312 3.242520 7 0.6475385 7.608779e-04 0.4266054 0.0023955526 1.842643 8 0.6477146 -1.514970e-03 13.7818093 0.0032017451 9.984375 10 0.6476173 9.364413e-04 -0.4951750 0.0015262034 1.779873 11 0.6475207 -4.874775e-04 -2.7857960 0.0007342088 4.085329 13 0.6434461 -3.862958e-04 1.9824193 0.0014601604 7.675396 14 0.6431794 2.168399e-03 0.4971012 0.0049161874 2.213705 16 0.6428849 -1.808575e-04 4.1519020 0.0006077990 4.408358 19 0.6381550 9.767567e-05 -5.5609859 0.0001699722 9.210782 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 415.315 co2l1 = 4.447 co2l0 = -0.165" [1] "co2l0 = -163.08 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "82 out of 360 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "278 out of 1074 1-min values rejected as stack air" [1] "278 out of 1074 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"