galaxyproject / galaxyproject/planemo

Cannot install from Tool Shed in Virtual Appliance

Open
#742 1 comment 0 reactions 0 assignees View on GitHub
bug
Dominant language
Python
Stars
110
Forks
102
Avg merge
4d 21h
Merged PRs (30d)
13

Description

I failed to install fastqc from main tool shed in VM's Galaxy (planemo-machine-1498170684).

I found below error message in /home/ubuntu/galaxy_web0.log

> tool_shed.util.hg_util DEBUG 2017-10-22 02:13:14,197 Error cloning repository: [Errno 13] Permission denied: '/opt/galaxy/shed_tools/toolshed.g2.bx.psu.edu'

Owner of /opt/galaxy/shed_tools/ dir is root/root.
I changed owner of it to ubuntu/ubuntu.
It seems to success to install.
Is it right way?

Thanks!

Contributor guide

Open the contributing guide

Research direction

Start by reviewing /home/ubuntu/galaxy_web0.log and the permissions on /opt/galaxy/shed_tools in the planemo-machine virtual appliance, then reproduce the fastqc installation from the main Tool Shed. Done means the installation works with the appliance's intended ownership and permissions, without requiring a manual ownership change.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
infrastructure
Issue type
Bug
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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