YAdumper: extracting and translating large information volumes from relational databases to structured flat files.
Downloading the information stored in relational databases into XML and other flat formats is a common task in bioinformatics. This periodical dumping of information requires considerable CPU time, disk and memory resources. YAdumper has been developed as a purpose-specific tool to deal with the integral structured information download of relational databases. YAdumper is a Java application that organizes database extraction following an XML template based on an external Document Type Declaration. Compared with other non-native alternatives, YAdumper substantially reduces memory requirements and considerably improves writing performance.
Fernández
José M
JM
Protein Design Group, National Center for Biotechnology, CNB-CSIC Cantoblanco, Madrid 28049, Spain. jmfernandez@cnb.uam.es
Valencia
Alfonso
A
D000465:Algorithms; D019295:Computational Biology; D003628:Database Management Systems; D016208:Databases, Factual; D001330:Electronic Data Processing; D033181:Information Dissemination / Q000379:methods; D016247:Information Storage and Retrieval / Q000379:methods*; D012984:Software; D014584:User-Computer Interface