[1] "2025-04-30 01:10:01 MDT" [1] "1601" "160129" "d029" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160129a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 01:10:05 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.902, ave o2scale2 = 0.797" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "160 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.902, ave o2scale2 = 0.797" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "160 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:10:05 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:10:05 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:10:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:10:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 160 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1275 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:10:28 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 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [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 = 0.947 co2off = 415.71 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.31 minutes" [1] "Shortest Cal: 6.02 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 5 [4,] 6 6 [5,] 7 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 3 1 9 0.001827633 0.007391869 0.006696335 1 -12.241866 487.4032 3 4 269 278 0.188981163 0.195240538 0.192806268 2 1.228367 385.8238 4 2 279 288 0.195935764 0.202195197 0.199760970 2 -21.487219 501.9973 6 2 514 522 0.397661169 0.403229167 0.401139959 2 -21.587009 508.3121 7 4 523 529 0.406010909 0.410880787 0.409488929 2 1.150796 397.3268 10 2 766 772 0.613359925 0.619619329 0.617811308 1 -21.544742 492.6571 12 2 1021 1030 0.815119705 0.821379051 0.818944889 3 -21.542414 495.6161 13 4 1031 1040 0.822074363 0.828334230 0.825899924 3 1.153406 381.7072 14 3 1041 1050 0.829029601 0.835288918 0.834245761 3 -12.409156 480.6108 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.116628 1.264827 0.0005326974 3.85683704 0.001864355 3.889478 3 1.111179 1.258499 0.0005222720 1.86801360 0.002585467 5.898198 4 1.110789 1.258060 -0.0025703388 -0.16273821 0.006797206 2.733239 6 1.105498 1.251911 0.0005385634 -6.00970595 0.001905799 21.880718 7 1.105857 1.252453 0.0033347700 -8.38522550 0.005357477 14.241964 10 1.108155 1.254859 -0.0018346921 2.38092540 0.003901305 5.271351 12 1.106826 1.253551 -0.0020482236 1.48463334 0.005576371 4.262218 13 1.106793 1.253510 0.0009998968 0.05798103 0.003051456 2.954042 14 1.106872 1.253608 -0.0019003420 -3.29791175 0.005235098 4.438230 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 405.032 co2l1 = 0.947 co2l0 = 0.002" [1] "co2l0 = -202.59 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "86 out of 325 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "239 out of 1146 1-min values rejected as stack air" [1] "239 out of 1146 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"