[1] "2025-04-30 03:12:33 MDT" [1] "1706" "170801" "d213" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170801a.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 03:12:37 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.884, ave o2scale2 = 0.958" [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] "64 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.884, ave o2scale2 = 0.958" [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] "66 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:12:37 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:12:37 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:12:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:12:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 66 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1337 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:13:00 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 CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.565 co2off = 423.55 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 8.2 minutes" [1] "Shortest Cal: 8.2 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 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 254 262 0.1818905 0.1875909 0.1854556 2 -2.597411 168.0675 1.150626 3 2 263 271 0.1883025 0.1939977 0.1918594 2 -5.337330 326.9795 1.150323 5 2 546 554 0.3898142 0.3955158 0.3933764 3 -5.397402 321.4713 1.136957 6 4 555 563 0.3962273 0.4019250 0.3997867 3 -2.657804 171.3006 1.136259 7 3 564 572 0.4026374 0.4083387 0.4076273 3 -6.219473 311.0100 1.135672 10 2 819 827 0.6042573 0.6099492 0.6078149 1 -5.573214 330.3117 1.116522 13 2 1098 1106 0.8058204 0.8115139 0.8093785 2 -5.516420 320.7148 1.118550 14 4 1107 1115 0.8122256 0.8179247 0.8157898 2 -2.750714 170.5612 1.118458 jfcv2 co2slp o2slp co2sd o2sd 2 1.059120 -0.0006503498 0.09677346 0.002444663 4.024972 3 1.058744 -0.0005595610 1.93073600 0.001442344 5.115693 5 1.047632 -0.0002147315 1.80501521 0.000968822 12.961541 6 1.047029 -0.0011943193 2.07092061 0.002707635 8.941882 7 1.046694 -0.0010063250 -2.21266600 0.002336825 2.718991 10 1.030928 0.0006253125 5.07147391 0.001502973 12.603229 13 1.033878 0.0006250122 1.99924547 0.001520568 6.825869 14 1.033756 -0.0002158041 2.29235417 0.001499504 6.360258 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 420.989 co2l1 = 4.419 co2l0 = 0.32" [1] "co2l0 = -165.96 co2l1 = 0.236" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "3 out of 15 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "12 out of 1192 1-min values rejected as stack air" [1] "12 out of 1192 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"