[galaxy-dev] Built-in reference genome

2013-03-05 Thread Charles Murphy
Hi, I' am trying to add built-in reference genomes for my local galaxy installation. I know this topic has been covered multiple times: I have looked through the discussion threads and the wiki (e.g. NGS Local Setup), but I' am still unsuccessful. Previously I have just loaded a reference genome

Re: [galaxy-dev] Built-in reference genome

2013-03-05 Thread Ross
Hi, Charles, builds.txt is what tells the Galaxy framework about available genomes. Various binary index files created from those genomes are separately managed for specific tools since some folks won't need some application specific sets of indexes for any given genome - so you need to edit a

Re: [galaxy-dev] Built-in reference genome

2013-03-05 Thread Charles Murphy
Hi, So I removed the edit I made to the builds.txt file. I' am not sure I completely understand how you think I should edit the tool-data/bwa_index.loc file. Previously it contained only the following line (tab delimited): ecoli ecoli ecoli