Question: trouble installing a custom tool from a toolshed: complete dependency hierarchy error
gravatar for mccoykg
2.7 years ago by
United States
mccoykg80 wrote:

Hi all! When I try to install a custom tool with biopython as a dependency from a private toolshed, I get the following error:

The complete dependency hierarchy could not be determined for this repository, so no required repositories will not be installed. This is likely due to invalid repository dependency definitions. Here are the attributes of the dependencies defined for this repository to help determine the cause of this problem.

Then when I try to install it anyway, it says "cloning" forever and never actually installs the thing. For reference, the repository has a python tool, its corresponding xml file, and the biopython dependency listed in a third file called tool_dependencies.xml. Biopython properly appears listed under the "dependencies" section, and the tool also appears correct under the "valid tools" section.

Thanks much in advance, and if you need any more information than this I'll provide it! I wasn't sure how much to list.

toolshed • 823 views
ADD COMMENTlink modified 2.7 years ago by Jennifer Hillman Jackson25k • written 2.7 years ago by mccoykg80
gravatar for Jennifer Hillman Jackson
2.7 years ago by
United States
Jennifer Hillman Jackson25k wrote:


Contacting the author of the repository and/or the owner of the tool shed is the way to get this resolved.

If this is your own tool and tool shed, you may get an offer for more help here or you can try the mailing list. If you do send to the mailing list, they will need more details about the stated problem area in the error message and likely other information.

Thanks, Jen, Galaxy team

ADD COMMENTlink written 2.7 years ago by Jennifer Hillman Jackson25k

Alright cool, I'll look into that! I do think it's not an error on the repository's side since we got the same error for multiple capsules, I'll try contacting the person in charge of the toolshed.

ADD REPLYlink written 2.7 years ago by mccoykg80
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