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NationalGenomicsInfrastructure / piper

A genomics pipeline build on top of the GATK Queue framework
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Missing resources when running from path #2

Closed johandahlberg closed 10 years ago

johandahlberg commented 10 years ago

If a workflow, for example "WholeGenome.sh" is run from the path, globalConfig.sh is not found. The same goes for the qscripts.

Make sure that it's the piper install locations is known to the scripts!

johandahlberg commented 10 years ago

@vezzi I think that this is working now. Will you test that and confirm so it's not just working for me? You will have to redo the install (or at least the part where you set things up in your .bashrc. As you will see in cd25323 the location of globalConfig.sh is now exported as a environment variable.

Also I might add that you should be able to pull straight from HEAD at master and get this working.

vezzi commented 10 years ago

I will test it. Tomorrow

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On 9 jul 2014, at 17:35, Johan Dahlberg notifications@github.com wrote:

@vezzi I think that this is working now. Will you test that and confirm so it's not just working for me? You will have to redo the install (or at least the part where you set things up in your .bashrc. As you will see in cd25323 the location of globalConfig.sh is now exported as a environment variable.

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