Hi Daniel, I've developed this code to my environment, but I can help you to do something like it. Please wait a few minutes, because I´m at lunch now and will send another e-mail with more explanation about.
[]´s Dickson S. Guedes <[EMAIL PROTECTED]> - ATI - Assessoria de Tecnologia da Informação UNISUL - Universidade do Sul de Santa Catarina +55 (0xx48) 3621-3200 - http://www.unisul.br -----Mensagem original----- De: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Em nome de Bornman, Daniel M Enviada em: quarta-feira, 26 de julho de 2006 14:27 Para: [email protected] Assunto: [Biojava-l] MultiAlignClustalW tutorial example All, I am currently trying to work through the MultiAlignClustalW example on the wiki but I am having some problems getting output. After changing the necessary variable to work on my Linux machine and choosing to use the ClustalWAlign(BufferedReader,String) construtor from my test class, I cannot get any output from this external process. I am using the latest version of ClustalW and I have noticed that when running it from the command line directly, I am prompted for many inputs. Does the java example take these into account? It seems like it attempts to in this section of code: String [] strComando = {clustalwPath+"ClustalW.EXE", "/infile=" + clustalwPath + fileName + ".input", "/outfile=" + clustalwPath + fileName + ".output", "/output=" + fileFormat, "/align"}; ...but I don't quite understand what all elements of this array are intending to do or how if fits into the series of prompts when running clustalw from the command line? Thank You for any insight, Daniel Bornman Researcher Battelle Memorial Institute 505 King Ave Columbus, OH 43201 614.424.3229 _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
