I am getting a similar error, but running it through logcombiner also throws an error:
java.lang.IllegalArgumentException: ERROR: The number of columns in file C:\BEAST.v2.4.1.Windows\BEAST\snap1.log does not match that of the first file
at beast.app.tools.LogCombiner.readLogFile(Unknown Source)
at beast.app.tools.LogCombiner.combineLogs(Unknown Source)
at beast.app.tools.LogCombiner.main(Unknown Source)
at beast.app.tools.LogCombinerLauncher.main(Unknown Source)
When I look at the log file, I notice that the offending line is much longer than all the other lines (sample 6000). I am running six parallel SNAPP analyses (8 threads each) on an Ubuntu box (beast 2.4.1) and all but 1 of the log files has the same problem. If I delete all of the lines prior to sample 8000 then it will load into Tracer normally.
Sample posterior likelihood prior u v theta0 theta1 theta2 theta3 theta4 theta5 theta6 theta7 theta8 theta9 theta10 theta11 theta12 theta13 theta14 theta15 theta16 theta17 theta18 theta19 theta20 theta21 theta22 TreeHeightLogger
0 -21619.79769497771 -20393.45291368419 -1226.3447812935235 7.074607933579335 0.5380250811190038 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.1746886051982879 0.2 0.22546846657491432
1000 -20194.541956726513 -19000.802654224353 -1193.7393025021606 3.4816909236279923 0.5838450417576516 0.04241663694706088 0.14096550403194216 0.11459697181058272 0.08163585224294688 0.1584977156257583 0.2555116265952683 0.29576785606161954 0.10237725644099571 0.11868955660004421 0.12055738414289857 0.006793690175032509 0.013064611482752616 0.1851310341191909 0.14835666634435346 0.10022391739959646 0.11890354237455897 0.1125174093395538 0.06160407537327494 0.07734544121924414 0.11584694239698862 0.04459308476880699 0.07935576820391764 0.2112286328856265 0.2982508082908788
2000 -20101.052343972366 -18903.621108885058 -1197.4312350873076 3.234372391117356 0.5914286586611716 0.048369358480780396 0.14756994551981678 0.11825781843855698 0.07937215949573323 0.16889183642810351 0.23297784823309406 0.22643791367741423 0.10665981950534478 0.16472196053904178 0.12785680554727336 0.005328254806452743 0.011841357940250059 0.2005734786616486 0.06788355667121052 0.1218967577905309 0.16801202163831644 0.08113793749474775 0.06018583760476948 0.09154492049039024 0.15322727591928548 0.04361660292371663 0.09358539638458994 0.2916841033107897 0.2697787357961922
3000 -20064.21757755161 -18874.523818488233 -1189.69375906338 3.3370746658643777 0.5881189356797673 0.049911568469045715 0.15566541743326123 0.13048934089678357 0.07195655275154426 0.15148488555725204 0.25657598887574773 0.23861364793301446 0.09590129523271264 0.1368600516081232 0.12056078958031008 0.0037915624809569917 0.014227868251265085 0.15980937206773588 0.10050625157364945 0.11936371790784192 0.12083073840181062 0.13728795455769724 0.15730422541444802 0.08048191967583673 0.15910362433283332 0.052511019985885844 0.09319819171485089 0.1606105079878873 0.33621643408629404
4000 -20011.284510261637 -18807.38749166661 -1203.897018595029 3.337482485822675 0.5881062706991537 0.0534026123942513 0.1554440342857984 0.14321355847206022 0.06838022152279927 0.1586333027410585 0.24818539008029364 0.3059217109128541 0.10570779079524475 0.15617312065825986 0.13872919753776544 0.003333359245969278 0.014328422468047136 0.17241494747434463 0.1266329660827069 0.06251954641449088 0.0710268195742064 0.09147904766537972 0.04289069929838025 0.08098980469497002 0.1190886851522731 0.07297015016948268 0.12624730162056355 0.11620941975473263 0.7790496280460664
5000 -19983.74898135331 -18794.591587760086 -1189.1573935932245 2.947256352367947 0.6021552154755271 0.05356478000754795 0.12657828879768065 0.12853104698490952 0.06655463980940968 0.1556583985428105 0.21984226550220634 0.20968441266068144 0.1522555148004346 0.1486733469569345 0.1223512172710878 0.005857953427954812 0.012132750468464834 0.16724890280017837 0.11056703316293166 0.06675201511473691 0.08954979606814768 0.2266480192389119 0.11305415312995312 0.07252898191418779 0.12395630246116549 0.06744312954463162 0.15105784243478604 0.14634251984999225 0.6987355785484817
6000 -19973.507891884034 -18784.88489623599 -1188.622995648041 3.2856166105328315 0.5897467365231499 0.05321807801078776 0.11716464192972946 0.09235340804723927 0.07209005123952461 0.14095934659441778 0.207815244052988 0.22905047528738048 0.10915221376463057 0.17537833106607995 0.11106382253469453 0.007843225386536553 0.009258866616626364 0.17135460083167148 0.14056772722153926 0.168210442147602 0.10435612609242632 0.24609218116839132 0.09333760662290842 0.10266619928247744 0.12096762250013886 0.06084946587067328 0.087000 -19974.86474633295 -18778.767167546957 -1196.097578785994 3.1327782426602777 0.5949567251617017 0.05294265974419102 0.08988702642096533 0.0884786180579358 0.06883165359840418 0.1490162233473812 0.2505700661274986 0.2940487276821102 0.1200980379240749 0.14807637624807854 0.10997091138141793 0.006319822130299096 0.017592316307077263 0.1142300691870118 0.17301408287886544 0.14197790998143578 0.08667238475983782 0.2950700989050676 0.05483735954081548 0.11519817320230913 0.06847203747975615 0.05989660212150921 0.1568005613103559 0.07993203128479053 0.5869353952702241
8000 -19975.74827545863 -18780.241125712186 -1195.5071497464444 2.950684072307572 0.6020123331379059 0.05076908797887532 0.10580435828256661 0.09284846231021546 0.0676617238913026 0.1589748048326592 0.2161584584750038 0.3657503103335417 0.12123903650697199 0.17456327512463002 0.11375767458286681 0.006813585977761885 0.021225191968880532 0.06149980098552765 0.1407310994369414 0.10403001092622989 0.11829289809538854 0.26840399018498057 0.09902765582157066 0.09502448506773516 0.08141230092397818 0.046353643075328875 0.15013885057180185 0.16713708164172247 0.6738535247443563