Mercurial > repos > iuc > hyphy_bgm
diff test-data/bgm-out1.json @ 1:cdfa1afd7cb0 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 533e8f97b4df382944ac8a31d98e04c9efeb6798"
author | iuc |
---|---|
date | Thu, 13 Feb 2020 15:00:37 -0500 |
parents | bf97cacc1a55 |
children |
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--- a/test-data/bgm-out1.json Wed Aug 21 12:23:09 2019 -0400 +++ b/test-data/bgm-out1.json Thu Feb 13 15:00:37 2020 -0500 @@ -1,282 +1,42 @@ { "MLE":{ "content": [ -[3, 4, 0.01806536842133838, 0.0196151052739404, 0.03768047369527878, 2, 4, 1], - [3, 5, 0.0136689326165866, 0.08411879896894461, 0.09778773158553121, 2, 2, 1], - [3, 6, 0.01626880980001384, 0.05621779910581199, 0.07248660890582583, 2, 2, 1], - [3, 7, 0.01296085994820069, 0.02206081801264715, 0.03502167796084783, 2, 1, 0], - [3, 9, 0.01069476203525126, 0.01376808584576788, 0.02446284788101914, 2, 3, 0], - [3, 10, 0.05465425513197631, 0.1433115560788012, 0.1979658112107776, 2, 1, 1], - [3, 11, 0.02893963856420952, 0.01605584764833427, 0.04499548621254379, 2, 1, 0], - [3, 12, 0.01072516405613842, 0.0249434485528662, 0.03566861260900463, 2, 1, 0], - [3, 14, 0.02105948857071199, 0.05408645518169206, 0.07514594375240405, 2, 2, 1], - [3, 15, 0.0123000231875007, 0.02432900062064017, 0.03662902380814088, 2, 3, 1], - [3, 16, 0.005326227185235535, 0.02715178476956077, 0.0324780119547963, 2, 4, 1], - 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"models.DNA.GTR.ModelDescription":{ - "AIC-c":472.7691802214979, - "Log Likelihood":-210.2027719289308, + "models.codon.MG_REV.ModelDescription":{ + "AIC-c":508.3788244913426, + "Log Likelihood":-208.6011769515537, "Rate Distributions":null, "display order":0, - "estimated parameters":24 + "estimated parameters":31 } }, "input":{ - "datatype":"nucleotide", - "file name":"/tmp/tmpSz4m4X/job_working_directory/000/3/working/bgm_input.fa", + "datatype":"codon", + "file name":"/tmp/tmp_Fhyr9/job_working_directory/000/3/working/./bgm_input.fa", "number of sequences":10, - "number of sites":30, + "number of sites":10, "trees":{ "0":"((((Pig:0.147969,Cow:0.21343)Node3:0.08509899999999999,Horse:0.165787,Cat:0.264806)Node2:0.058611,((RhMonkey:0.002015,Baboon:0.003108)Node9:0.022733,(Human:0.004349,Chimp:0.000799)Node12:0.011873)Node8:0.101856)Node1:0.340802,Rat:0.050958,Mouse:0.09795)" } }, "settings":{ "burn-in":10000, - "data-type":"nucleotide", + "data-type":"codon", "max-parents":1, "min-subs":1, "samples":100, @@ -394,15 +154,15 @@ "timers":{ "Baseline fit":{ "order":1, - "timer":0 + "timer":3 }, "Network inference":{ "order":2, - "timer":1 + "timer":0 }, "Overall":{ "order":0, - "timer":1 + "timer":3 } } } \ No newline at end of file