[1] "2025-04-30 03:30:53 MDT" [1] "1708" "170910" "d253" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170910a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 76080 63 [1] 76080 [1] 76080 [1] "testing skipping spike filter" [1] 76080 [1] 76080 [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 03:30:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 1.43" [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] "93 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 1.43" [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] "93 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:30:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:30:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:31:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:31:10 MDT" [1] "reading in recalculated plot titles" [1] "Removed 93 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1174 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:31:12 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 = 4.483 co2off = 414.54 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.94 minutes" [1] "Average Cal: 7.74 minutes" [1] "Shortest Cal: 5.68 minutes" [1] "Longest Cal: 7.96 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,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 186 193 0.2073476 0.2128782 0.2109056 2 -1.287583 159.2721 1.166387 3 2 194 201 0.2136658 0.2191790 0.2172100 2 -4.038125 269.9516 1.166565 5 2 447 454 0.4154740 0.4209877 0.4190185 3 -3.962344 314.1256 1.164859 6 4 455 462 0.4217753 0.4272889 0.4253198 3 -1.231344 155.7301 1.164914 7 3 463 470 0.4280765 0.4335899 0.4331961 3 -4.753427 311.1725 1.165005 9 4 707 714 0.6237052 0.6292230 0.6272503 2 -1.206260 152.7592 1.165504 10 2 715 722 0.6300150 0.6355286 0.6335595 2 -3.910281 330.5412 1.165815 11 5 723 730 0.6363163 0.6418384 0.6414446 NA -2.180688 195.4284 1.166237 13 2 967 974 0.8319016 0.8374150 0.8354460 2 -3.957896 328.5377 1.167536 14 4 975 982 0.8382027 0.8437249 0.8417558 2 -1.237865 159.6289 1.167379 jfcv2 co2slp o2slp co2sd o2sd 2 0.7020286 -0.0025351631 -4.38340349 0.005467470 18.0248471 3 0.7020120 0.0010738000 8.54198237 0.002608580 26.5055224 5 0.6982463 0.0030778852 2.65845248 0.006732123 9.0290031 6 0.6982531 0.0006092951 -6.28594331 0.001465089 16.8623202 7 0.6981843 -0.0014154508 1.13981594 0.003263294 0.9141061 9 0.6958258 0.0021062015 5.09162209 0.004627266 14.7253649 10 0.6959186 0.0003920279 0.08109211 0.001041896 15.1398665 11 0.6960590 0.0369200250 -16.72561601 0.029610096 13.4140511 13 0.6939988 0.0004880725 -8.00758124 0.001814295 27.6806323 14 0.6937556 0.0015980291 -3.49178751 0.003748837 12.6062853 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 414.578 co2l1 = 4.466 co2l0 = -0.059" [1] "co2l0 = -163.18 co2l1 = 0.241" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "81 out of 675 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "594 out of 1041 1-min values rejected as stack air" [1] "594 out of 1041 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"