Tricky, thanks for updating the wiki!

On 02.09.2015 15:23, Peter Cock wrote:
Thanks Bjoern,

Yes, reading the code in that file all three do look to be
created via os.path.abspath(...) and so won't have a
trailing slash. I've added that information to the wiki.

I'm assuming this now in my MIRA 4.9.5 package, but
a double trailing slash should be harmless anyway:

https://github.com/peterjc/pico_galaxy/commit/708050c2bd6e7e11eee53bfeaee6ff8e5a4c9926

Right now I am assuming the trailing slash when doing
${MIRA4_9}mirabait which I want to default to using
mirabait on the $PATH if the variable $MIRA4_9 is not
setup.

Peter

On Wed, Sep 2, 2015 at 2:08 PM, Bjoern Gruening
<bjoern.gruen...@gmail.com> wrote:
Hi Peter,

it looks like they are without the trailing slash:

https://github.com/galaxyproject/galaxy/blob/dev/lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py#L598
https://github.com/galaxyproject/galaxy/pull/511/files#diff-93a0802a2778786e35399ed83453dca6R48

Ciao,
Bjoern



On 02.09.2015 13:29, Peter Cock wrote:
Lovely, thanks! I've added a couple of links pointing to that page :)

It does list a few of relevant environment variables, $INSTALL_DIR,
$REPOSITORY_INSTALL_DIR and $TMP_WORK_DIR, but does
not comment on if these directory names include a trailing slash
or not...

Peter

On Wed, Sep 2, 2015 at 12:12 PM, Nicola Soranzo <nsora...@tiscali.it>
wrote:
Hi Peter,
the page you are looking for is:

https://wiki.galaxyproject.org/ToolDependenciesTagSets

I think it should be better linked, I had to bookmark it!

Cheers,
Nicola

Il 02.09.2015 12:33 Peter Cock ha scritto:

Hi all,

Is there a page on the wiki describing the tool_dependencies.xml file
syntax?
Searching finds pages with examples, e.g.

https://wiki.galaxyproject.org/ToolsWithDependenciesInSameRepository
https://wiki.galaxyproject.org/ComplexRepositoryDependencies

What I am looking for is something like the wiki page for the tool XML:
https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax

This missing page should do things like list all the XML tags, for
example
showing all the permitted actions in tool_dependencies.xml?

What are the pre-defined environment variables like $INSTALL_DIR,
and my specific question today - does that have a trailing slash or not?

Peter
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