Moderator: Bjoern Gruening

gravatar for Bjoern Gruening
Bjoern Gruening4.7k
Reputation:
4,710
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Trusted
Location:
Germany
Website:
https://github.com/bgr...
Twitter:
bjoerngruening
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Google Scholar Page
Last seen:
1 week ago
Joined:
4 years ago
Email:
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Posts by Bjoern Gruening

<prev • 685 results • page 1 of 69 • next >
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Comment: C: RNA Structure (in silico) prediction
... Which tool have you used or which Galaxy instance? ...
written 7 days ago by Bjoern Gruening4.7k
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Answer: A: A server for conservation genomics
... Hi Tiago, such questions are really hard to answer as you can run such a service with just 100 cores and then people need to wait a little bit longer or you can easily add a few hundreds more to reduce the wait time. I would say BWA or BWA-mem should be finished in a few hours given 4 cores. 4 core ...
written 12 days ago by Bjoern Gruening4.7k
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Answer: A: A minimal galaxy server needed
... You can also use the Galaxy Docker image, a production ready Docker instance with Galaxy and all other components included. http://bgruening.github.io/docker-galaxy-stable/ P.S. What means Galaxy is slow? Are you referring to usegalaxy.org? ...
written 17 days ago by Bjoern Gruening4.7k
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Answer: A: tool integration with planemo
... Hi, can I recommend to use the https://testtoolshed.g2.bx.psu.edu or the main toolshed. You need to configure the local toolshed properly with a user and then configure planemo to use it etc... Ciao, Bjoern ...
written 28 days ago by Bjoern Gruening4.7k
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Comment: C: Error installing own tool on a Galaxy Docker instance
... So you run Galaxy Docker with Docker containers and it works? Awesome! Let us know if anything was problematic in our documentation! Thanks. ...
written 4 weeks ago by Bjoern Gruening4.7k
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Comment: C: TS dependencies install will conda doesn't work on galaxy Docker
... You don't need to change anything in your galaxy.ini it should work out of the box. Can you verify that this also happens to other tools? I just checked with bgruening/galaxy-stable:17.05 and this works for me. ...
written 4 weeks ago by Bjoern Gruening4.7k
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Comment: C: install dependencies over conda
... Can you give us a outline what you have done? Essentially, you need to check that Conda is enabled in galaxy.ini, that during install you check a checkbox to install conda dependencies or enable conda_auto_install. ...
written 4 weeks ago by Bjoern Gruening4.7k
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Comment: C: Import docker containers on a galaxy instance
... Strictly yes, but I would recommend you to create a BioContainer, by submitting a recipe to BioConda. ...
written 4 weeks ago by Bjoern Gruening4.7k
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Answer: A: PAR-CLIP data analysis
... You might also want to look at the RNA-workbench which has several RNA related tools included: https://github.com/bgruening/galaxy-rna-workbench ...
written 5 weeks ago by Bjoern Gruening4.7k
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Answer: A: Import docker containers on a galaxy instance
... Hi, if you have Galaxy configured to use Docker and your tools do support BioContainers, then Galaxy should be able to download images for you on-the-fly as needed. Cheers, Bjoern ...
written 5 weeks ago by Bjoern Gruening4.7k

Latest awards to Bjoern Gruening

Teacher 12 days ago, created an answer with at least 3 up-votes. For A: Adding admin users
Teacher 26 days ago, created an answer with at least 3 up-votes. For A: Adding admin users
Appreciated 6 weeks ago, created a post with more than 5 votes. For Announcement: Galaxy Docker Images
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Announcement: Galaxy Docker Images
Popular Question 3 months ago, created a question with more than 1,000 views. For Announcement: Galaxy Docker Images
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Adding admin users
Appreciated 8 months ago, created a post with more than 5 votes. For A: Deploying galaxy instances using docker
Scholar 8 months ago, created an answer that has been accepted. For A: Adding admin users
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Adding admin users
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: Galaxy via Docker?
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: Galaxy via Docker?
Appreciated 11 months ago, created a post with more than 5 votes. For A: Deploying galaxy instances using docker
Good Answer 11 months ago, created an answer that was upvoted at least 5 times. For A: Deploying galaxy instances using docker
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: Creating Appropriate Tool Dependencies for Custom Tool in Galaxy
Scholar 13 months ago, created an answer that has been accepted. For A: ngs.plot on use galaxy.org
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: Creating Appropriate Tool Dependencies for Custom Tool in Galaxy
Popular Question 15 months ago, created a question with more than 1,000 views. For Announcement: Galaxy Docker Images
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: ngs.plot on use galaxy.org
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: ngs.plot on use galaxy.org
Scholar 16 months ago, created an answer that has been accepted. For A: ngs.plot on use galaxy.org
Scholar 16 months ago, created an answer that has been accepted. For A: ngs.plot on use galaxy.org
Scholar 17 months ago, created an answer that has been accepted. For A: ngs.plot on use galaxy.org
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: ngs.plot on use galaxy.org
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: ngs.plot on use galaxy.org
Scholar 17 months ago, created an answer that has been accepted. For A: ngs.plot on use galaxy.org

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