[1] "2025-04-29 20:44:32 MDT" [1] "1402" "140304" "d063" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140304a.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] "2025-04-29 20:44:36 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.828, ave o2scale2 = 0.754" [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] "222 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.828, ave o2scale2 = 0.754" [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] "222 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:44:36 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:44:36 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:44:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:44:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 222 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1214 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:44:59 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.445 co2off = 364.8 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.51 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 6 8 [4,] 9 10 [5,] 11 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 93 101 0.07043828 0.07670116 0.07411678 3 -3.986185 306.5856 3 4 102 109 0.07739656 0.08226852 0.08052977 3 57.652740 153.6653 4 3 110 118 0.08505038 0.09061453 0.08991897 3 36.548241 216.9049 6 4 271 278 0.27989468 0.28545842 0.28348802 1 57.629430 170.5162 7 5 279 282 0.29380839 0.29937413 0.30163555 NA 32.752152 241.7247 9 2 485 494 0.48795122 0.49421059 0.49177616 3 -4.159766 304.4756 10 4 495 504 0.49490608 0.50116907 0.49873192 3 57.633289 161.4160 11 3 505 514 0.50186458 0.50812758 0.50708464 3 36.446008 242.4947 13 4 784 793 0.69663686 0.70289592 0.70046195 2 57.756914 161.2260 14 2 794 800 0.70498611 0.70985417 0.70832426 2 -4.688084 305.2714 16 2 1079 1088 0.90533767 0.91159687 0.90916265 3 -4.896938 305.1354 17 4 1089 1098 0.91229219 0.91855188 0.91611731 3 57.813836 157.8377 18 5 1099 1108 0.91924716 0.92550605 0.92446302 NA 32.090156 222.1236 19 3 1109 1118 0.92620223 0.93246094 0.93141798 3 36.304336 240.1207 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.201832 1.319959 -0.0171724810 4.87716785 0.048638750 13.988844 3 1.202013 1.320221 0.0117418081 4.61101836 0.024311662 8.971760 4 1.202184 1.320568 0.0082212720 -13.41062351 0.018036762 14.338112 6 1.199169 1.317414 0.0018000167 3.10960519 0.006479396 7.296420 7 1.200175 1.318643 0.1389194164 5.85642278 0.854758307 26.982131 9 1.204666 1.323385 -0.0005064327 1.67532546 0.010105899 6.345193 10 1.204884 1.323609 0.0062376411 0.66663920 0.017779997 3.476216 11 1.205448 1.324239 0.0004954313 -6.10548197 0.007578785 8.758459 13 1.212179 1.331142 0.0046639819 1.98618955 0.013846010 5.349499 14 1.212730 1.331641 -0.0104834858 2.11424451 0.020526949 4.662396 16 1.217482 1.336985 -0.0104642872 0.06116497 0.027694845 4.718741 17 1.217372 1.336885 0.0077418395 4.20050078 0.022195608 10.438116 18 1.217705 1.337231 -0.0392601531 0.94267208 0.027798135 1.707201 19 1.217914 1.337465 -0.0006352672 -1.60858202 0.003642497 2.510095 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.582 co2l1 = 0.445 co2l0 = 0.012" [1] "co2l0 = -147.42 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "53 out of 155 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "102 out of 1032 1-min values rejected as stack air" [1] "102 out of 1032 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"