installed bwa but there are no bwa files produced in galaxy-dist folder

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installed bwa but there are no bwa files produced in galaxy-dist folder

Anna
Hello guys,

I've got a problem with the integration of the BWA Tool in Galaxy.
I installed BWA and Galaxy in a virtual box and now I want integrate BWA as a tool.
For this I have to do this steps:


$ sudo cp /home/ubuntu/galaxy-dist/bwa-0.7.4/bwa   /usr/local/bin

now bwa can be run from the command line

$ bwa

The Galaxy tool also requires a loc file which contains the locations of indexes for locally stored genome builds. We don't have any so we can just use the empty sample:

$ cp tool-data/bwa_index.loc.sample   tool-data/bwa_index.loc

$ sh run.sh --reload


The problem is, that in my tool-data folder doesn't exist bwa files even if bwa is installed and aso linked in the bin folder!


I hope you can help me, because I don't know what to do now!


Thanks and greets,


Anna
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