[1] "2025-04-29 20:49:04 MDT" [1] "1402" "140313" "d072" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140313a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:49:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.749" [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] "6 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.749" [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] "6 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:49:08 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:49:08 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:49:28 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:49:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1430 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:49:36 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 = -476" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [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 = 0.443 co2off = 384.09 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.87 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 65 74 0.04585773 0.05211698 0.04968295 2 57.284484 164.9899 3 2 75 84 0.05281322 0.05907575 0.05663946 2 -5.006867 302.3129 4 5 85 94 0.05977104 0.06603067 0.06498728 NA 31.809625 230.9813 6 2 365 374 0.25457529 0.26083565 0.25840158 3 -4.877531 306.3571 7 4 375 384 0.26153125 0.26780324 0.26536558 3 57.279234 163.7686 8 3 385 394 0.26849884 0.27475851 0.27371512 3 35.902766 243.7952 10 4 664 673 0.46327289 0.46953591 0.46710161 2 57.320547 161.7443 11 2 674 683 0.47023148 0.47649109 0.47405703 2 -5.148164 303.8922 13 2 964 973 0.67196759 0.67822685 0.67579273 3 -5.072055 307.4753 14 4 974 983 0.67892245 0.68518521 0.68274982 3 57.347227 162.1033 15 5 984 993 0.68588079 0.69214005 0.69109688 NA 31.936844 218.7996 16 3 994 1003 0.69283565 0.69909844 0.69805517 3 35.938250 245.3866 18 4 1261 1268 0.88206302 0.88693134 0.88519267 2 57.432771 163.3947 19 2 1269 1278 0.88762682 0.89388588 0.89145190 2 -5.418883 306.0044 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.210069 1.330114 -0.0022512297 1.89823968 0.009968295 5.804051 3 1.210275 1.330321 -0.0026150776 -0.49743274 0.011282317 3.572989 4 1.210319 1.330328 -0.0404528051 1.05519566 0.028637825 2.218375 6 1.210761 1.330854 -0.0132051690 0.33924786 0.032868549 2.383014 7 1.210712 1.330791 -0.0000602553 1.75999460 0.019109113 4.587141 8 1.210889 1.330980 -0.0014557960 1.64455903 0.006066756 2.144521 10 1.213108 1.333419 -0.0046164198 1.61740066 0.012537032 4.902046 11 1.213260 1.333593 -0.0097927094 1.63277742 0.024593207 4.521799 13 1.214958 1.335360 0.0052149313 1.25489459 0.013672649 4.500740 14 1.215010 1.335397 0.0017088746 1.08536814 0.012602346 3.738097 15 1.215262 1.335682 -0.0413737155 -0.75955923 0.029300737 1.406309 16 1.215296 1.335731 -0.0022994879 -2.23655566 0.009870704 2.983477 18 1.220437 1.341076 -0.0073529995 0.62727252 0.014097577 3.589159 19 1.220739 1.341394 -0.0022814277 0.07466114 0.007089309 3.278864 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.898 co2l1 = 0.442 co2l0 = 0.021" [1] "co2l0 = -150.31 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "68 out of 270 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "202 out of 1240 1-min values rejected as stack air" [1] "202 out of 1240 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"