----------------------------------------------------------------------------- - Banjo Bayesian Network Inference with Java Objects - - Release 2.2.0 15 Apr 2008 - - Licensed from Duke University - - Copyright (c) 2005-08 by Alexander J. Hartemink - - All rights reserved - ----------------------------------------------------------------------------- - Project: Ordering(AD.BR.APOE.->.PSEN1) - User: lsand039 - Dataset: 4-vars-2254-temporal-observations - Notes: static bayesian network inference ----------------------------------------------------------------------------- - Settings file: ----------------------------------------------------------------------------- - Input directory: data/release2.0/Summer/input - Observations file: AD.BR.APOE.PSEN1.txt - Observation count: 2254 - Number of variables: 4 - Variable names: inFile - Discretization policy: none - Exceptions to the discretization policy: none ----------------------------------------------------------------------------- - Initial structure file: - 'Must be present' edges file: AD.BR.APOE.->.PSEN1.txt - 'Must not be present' edges file: noAD.BR.APOE.->.PSEN1.txt - Min. Markov lag: 0 - Max. Markov lag: 0 - Max. parent count: 2 - Equivalent sample size for Dirichlet parameter prior: 1.0 ----------------------------------------------------------------------------- - Searcher: SearcherSimAnneal - Proposer: ProposerRandomLocalMove - Evaluator: defaulted to EvaluatorBDe - Decider: defaulted to DeciderMetropolis ----------------------------------------------------------------------------- - Pre-compute logGamma: no - Cache: fastLevel1 - Cycle checking method: Depth-first Search ----------------------------------------------------------------------------- - Initial temperature: 10000 - Cooling factor: 0.7 - Reannealing temperature: 800 - Max. accepted networks before cooling: 2500 - Max. proposed networks before cooling: 10000 - Min. accepted networks before reannealing: 500 ----------------------------------------------------------------------------- - Output directory: data/release2.0/Summer/output - Report file: AD.BR.APOE.->.PSEN1.static.report.2017.11.08.09.04.30.txt - Number of best networks tracked: 1 - Max. time: 1.0 m - Max. restarts: 100000 - Min. networks before checking: 1000 - Screen reporting interval: 30.0 m - File reporting interval: 2.0 m ----------------------------------------------------------------------------- - Compute influence scores: yes - Compute consensus graph: yes - Create consensus graph as HTML: yes - Create 'dot' output: yes - Location of 'dot': /usr/bin/dot /usr/bin/X11/dot /usr/share/man/man1/dot.1.gz ----------------------------------------------------------------------------- - XML output directory: data/release2.0/Summer/output - XML Report file: - XML settings to export: - XML parser: org.apache.xerces.parsers.SAXParser - Banjo XML format version: 1.0 ----------------------------------------------------------------------------- - Seed for starting search: 1510149870753 ----------------------------------------------------------------------------- - Number of threads: 1 ----------------------------------------------------------------------------- - 'Must be present' edges, as loaded: ----------------------------------------------------------------------------- 4 0 0 1 0 2 2 0 1 3 1 2 ----------------------------------------------------------------------------- - 'Must not be present' edges, as loaded: ----------------------------------------------------------------------------- 4 0 2 1 2 1 2 0 2 2 0 3 1 1 ----------------------------------------------------------------------------- Memory info before starting the search: Banjo is using 7 mb of memory Prep. time used: 57.0 ms Beginning to search: expect a status report every 30.0 m ----------------------------------------------------------------------------- - Final report Best network overall ----------------------------------------------------------------------------- Network score: -5855.7598, first found at iteration 1 4 0 0 1 0 2 2 0 1 3 1 2 ----------------------------------------------------------------------------- - Search Statistics ----------------------------------------------------------------------------- Statistics collected in searcher 'SearcherSimAnneal': Number of networks examined: 306006000 Total time used: 1.0 m High score: -5855.7598, first found at iteration 1 Number of re-anneals: 2324 Statistics collected in proposer 'ProposerRandomLocalMove': Additions -- proposed: 235460325 Deletions -- proposed: 35278983 Reversals -- proposed: 35266691 Statistics collected in cycle checker 'CycleCheckerCheckThenApply': Additions -- considered: 235460325, acyclic: 70634504 Deletions -- no cyclicity test necessary Reversals -- considered: 35266691, acyclic: 0 Statistics collected in evaluator 'EvaluatorBDe': Scores computed: 5 Scores (cache) placed fetched with 0 parents: 2 2 with 1 parents: 1 35278984 with 2 parents: 2 70634503 Statistics collected in decider 'DeciderMetropolis': Additions -- considered: 70634504, better score: 0, other accepted: 35278984 Deletions -- considered: 35278983, better score: 35278983, other accepted: 0 Reversals -- considered: 0, better score: 0, other accepted: 0 Average permissivity: 0.499 Memory info after completing the search: Banjo is using 7 mb of memory Network score: -5855.7598, found by thread 1 4 0 0 1 0 2 2 0 1 3 1 2 ----------------------------------------------------------------------------- - Post-processing Influence scores ----------------------------------------------------------------------------- Influence score for (1,0) -> (2,0) .0295 Influence score for (0,0) -> (2,0) .0282 Influence score for (2,0) -> (3,0) .0983 ----------------------------------------------------------------------------- - Post-processing DOT graphics format output ----------------------------------------------------------------------------- digraph abstract { label = "Banjo Version 2.2.0\nHigh scoring network, score: -5855.7598\nProject: Ordering(AD.BR.APOE.->.PSEN1)\nUser: lsand039\nDataset: 4-vars-2254-temporal-observations"; labeljust="l"; 0 [label="Alzheimer"]; 1 [label="BrainRegion"]; 2 [label="APOE"]; 3 [label="PSEN1"]; 0->2; 1->2; 2->3; }