Question: HAMMOCK local installation
0
gravatar for f.kaiser
12 months ago by
f.kaiser0
f.kaiser0 wrote:

I’m desperately trying to install the latest (V1.1.0 from 23/07/2017) version of the HAMMOCK tool on my local Galaxy installation (under MacOS). However, the installation fails with missing dependencies for clustalomega, hmmer and hhsuite. Any help ???

software error galaxy • 462 views
ADD COMMENTlink modified 12 months ago • written 12 months ago by f.kaiser0

Hello, What version of Galaxy are you running? If not 17.05, please try upgrading then reinstalling.

Let us know how that goes and we can troubleshoot from there.

Thanks, Jen, Galaxy team

ADD REPLYlink written 12 months ago by Jennifer Hillman Jackson25k

Hi Jen, I'm already on 17.05 BW Franky

ADD REPLYlink written 12 months ago by f.kaiser0

Anybody else having problems with HAMMOCK or its installation ? Any feedback welcome !

ADD REPLYlink written 12 months ago by f.kaiser0
0
gravatar for Jennifer Hillman Jackson
12 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

You could try installing these dependencies directly. The tool was recently updated but still uses packages. Packages are considered a deprecated method of installing dependencies but can still work.

But if doing that does not resolve the problems, you should contact the repository owner for advice. First, log in to the Tool Shed at http://usegalaxy.org/toolshed (create an account if needed). Next search for then click into the tool. The menu for "Repository Actions" in the upper right corner has an option for "contact author".

Hope that helps! Jen, Galaxy team

ADD COMMENTlink written 12 months ago by Jennifer Hillman Jackson25k
0
gravatar for f.kaiser
12 months ago by
f.kaiser0
f.kaiser0 wrote:

Hi Jen, I've already tried to deinstall/re-install the missing dependencies directly but without any success. Should I post the error messages ? Unfortunately, the contact author option is not available in the Repository Action menu.

ADD COMMENTlink written 12 months ago by f.kaiser0

Hi - I just checked and when logged into the Tool Shed, the option to contact the author is available. This graphic shows and explains how: https://imgur.com/JlX5hu4

The linked publication also includes a contact: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4681989/

Another option when troubleshooting tools from the wider community is to go linked source repos (this one has a github repository) and review content/readmes: https://github.com/hammock-dev/hammock.

There is a link on the readme for "tutorials/more info". This points to the team's webpage http://www.recamo.cz/en/software/hammock-cluster-peptides/. There is a "CONTACT" link to submit a question, which could be used, but the "TEAM" link also looks promising (maybe try the group's project manager listed under Project team?).

ADD REPLYlink modified 12 months ago • written 12 months ago by Jennifer Hillman Jackson25k
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