Question: Create local toolshed using Planemo
0
gravatar for varuna.peiris
3 months ago by
varuna.peiris0 wrote:

Hello, I tried to create galaxy local toolshed using planemo. I used command as follows,

  1. create virtual env – virtualenv .venv; . .venv/bin/activate
  2. Install planemo – pip install planemo
  3. To confiuring a shed account – planemo config_init
  4. Create a repository – planemo shed_init --name=seqtk_seq \ --owner=planemo \ --description=seqtk_seq \ --long_description="Tool that converts FASTQ to FASTA files using seqtk" \ --category="Fastq Manipulation" planemo shed_create --shed_target local

This stage giving two errors time to time,

  1. Failed to include files for [{'source': ''}] Problem encountered executing action for one or more repositories.**

enter image description here

  1. Could not update seqtk_seq HTTPConnectionPool(host='localhost', port=9009): Max retries exceeded with url: /api/repositories?key=dc5c7cd5cf56a2f44aacf755109e63b9 (Caused by NewConnectionError('<urllib3.connection.httpconnection object="" at="" 0x7fca11b72310="">: Failed to establish a new connection: [Errno 111] Connection refused',)), 0 attempts left: HTTPConnectionPool(host='localhost', port=9009): Max retries exceeded with url: /api/categories?key=dc5c7cd5cf56a2f44aacf755109e63b9 (Caused by NewConnectionError('<urllib3.connection.httpconnection object="" at="" 0x7fca11b72350="">: Failed to establish a new connection: [Errno 111] Connection refused',)), 0 attempts left:

enter image description here

If any one have idea about this errors or creating galaxy local toolshed using planemo, could you please instruct to me???? Thank you.

edit moderator: I have fixed the style and the image links

ADD COMMENTlink modified 3 months ago by Martin Čech ♦♦ 4.7k • written 3 months ago by varuna.peiris0
2
gravatar for Martin Čech
3 months ago by
Martin Čech ♦♦ 4.7k
United States
Martin Čech ♦♦ 4.7k wrote:

Planemo does not create toolsheds. Planemo is able to connect to an existing toolshed e.g. in order to upload a Galaxy Tool there. If you want a local toolshed you need to run it yourself.

ADD COMMENTlink written 3 months ago by Martin Čech ♦♦ 4.7k

Thank you for answer

ADD REPLYlink written 3 months ago by varuna.peiris0
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