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galaxyprojectdotorg.tools role does not exist in galaxyFS.yml #15

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hackdna opened this issue Mar 31, 2016 · 5 comments
Open

galaxyprojectdotorg.tools role does not exist in galaxyFS.yml #15

hackdna opened this issue Mar 31, 2016 · 5 comments

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@hackdna
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hackdna commented Mar 31, 2016

The README file says on lines 205-208:

If you wish to use this playbook only to install some Galaxy tools, comment out all roles except galaxyprojectdotorg.tools in galaxyFS.yml file. You may also want to comment out the pre_tasks, depending on where you are running this.

However, there is no galaxyprojectdotorg.tools role in galaxyFS.yml, so it's not clear which roles to remove. Also, it is not clear which pre_tasks to remove.

@hackdna hackdna changed the title galaxyprojectdotorg.tools role does not exist in galaxyFS.yml file galaxyprojectdotorg.tools role does not exist in galaxyFS.yml Mar 31, 2016
@afgane
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afgane commented Mar 31, 2016

That should be galaxy-tools role: https://github.com/galaxyproject/galaxy-cloudman-playbook/blob/master/galaxyFS.yml#L41

All the pre-tasks can be commented but that depends if the dirs those pre-tasks already exist, although it really doesn't hurt to leave them uncommented.

If you're trying to just install some tools, this playbook may be a bit easier to digest: https://github.com/afgane/galaxy-tools-playbook

@hackdna
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hackdna commented Mar 31, 2016

I see, thanks. I'm trying to install some tools, customize some .loc files, as well as job_conf.xml. What would be the best approach?

@afgane
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afgane commented Mar 31, 2016

You can probably customize the basic playbook (https://github.com/afgane/galaxy-tools-playbook) a bit then and just add a couple of tasks there that change .locs and job_conf.xml as desired.

@hackdna
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hackdna commented Mar 31, 2016

OK, thanks. I should have mentioned that I also need to produce a galaxyFS archive that could be used in our private Cloud Launch instance along with a custom galaxyIndices volume (which I've already prepared manually).

@afgane
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afgane commented Mar 31, 2016

Ahh - then take back what I said and use this playbook - it has provisions to build the archive and all. If you run it a couple of times as tests, you'll get a hang of how it behaves. Also feel free to send me the config you're using if you run into problems and I can take a look.

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