User: martenson

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martenson380
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380
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PSU
Last seen:
6 months ago
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6 years ago
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software engineer

Posts by martenson

<prev • 58 results • page 1 of 6 • next >
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Answer: A: 530 login incorrect FileZilla for Galaxy FTP
... This was broken for a bit since our move from plain FTP to encrypted FTPS. Most of the issues should be resolved now. For details/updates you can follow https://biostar.usegalaxy.org/p/24618/ ...
written 7 months ago by martenson380
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Answer: A: tool_dependencies.xml Not Working - Why?
... BUSCO seems to be available in the [bioconda](https://bioconda.github.io/recipes.html) channel of the conda package manager. Thus you can use it already in Galaxy and all you need is the proper `` tag in your Galaxy tool wrapper. There shouldn't be a need to make a Tool Shed package recipe for it, ...
written 8 months ago by martenson380
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Answer: A: Adding a visualization plugin to a galaxy local toolshed
... Galaxy Tool Shed does not support hosting visualization plugins yet an Galaxy cannot automatically install a visualization plugin either. The best way top share it with your colleagues is to pack all the plugin files and send it to them with instructions (same that you did when you enabled i tin you ...
written 8 months ago by martenson380
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Comment: C: Core utilization with Galaxy
... genomax is right, to use more threads the feature has to be supported by both the software and the Galaxy tool. Galaxy tool authors specify it e.g. as `--num-threads="\${GALAXY_SLOTS:-4}"` in their tool wrapper. Only if both these conditions are fulfilled you can use the job_conf and set up a multi- ...
written 11 months ago by martenson380
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Answer: A: How to upload large fastq files to a local galaxy instance?
... Use a data library. You do not even have to copy/duplicate the file, it can just be symlinked and used instantly. See how to do it here: https://galaxyproject.org/data-libraries/#from-user-folder ...
written 11 months ago by martenson380
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Comment: C: REST API to run pipeline ( not Galaxy)
... Does any from this list have GUI for running biocontainers? ...
written 11 months ago by martenson380
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Comment: C: Is The Biostar Fading? (Updated For 2014)
... The site has 34,739 registered users that created 242,051 posts These are distributed as 44,767 questions, 60,002 answers and 133,902 comments. ...
written 11 months ago by martenson380
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Comment: C: REST API to run pipeline ( not Galaxy)
... I am really sorry but that is again ... Galaxy. http://biocontainers.pro/docs/faqs/galaxy-biocontainers/ ...
written 12 months ago by martenson380
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Comment: C: Trouble mapping in Galaxy - "waiting to run"
... That is correct, sorry about that. :/ ...
written 20 months ago by martenson380
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Answer: A: Trouble mapping in Galaxy - "waiting to run"
... Generally mapping jobs will take some time, but in this case the fault is probably on Galaxy's side, as it seems the job did not even start yet. This could be caused by either the queue of the compute resources being full (resolved by waiting) or some error in the processing of the job. Is this st ...
written 21 months ago by martenson380

Latest awards to martenson

Scholar 7 months ago, created an answer that has been accepted. For A: Running Galaxy tools locally using bx-python
Scholar 8 months ago, created an answer that has been accepted. For A: Running Galaxy tools locally using bx-python
Scholar 2.3 years ago, created an answer that has been accepted. For A: Missing universe__wsgi.ini file in Galaxy install
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: Running Galaxy tools locally using bx-python
Voter 2.4 years ago, voted more than 100 times.
Commentator 2.6 years ago, created a comment with at least 3 up-votes. For C: Diagnose my daughter?
Scholar 3.5 years ago, created an answer that has been accepted. For A: Missing universe__wsgi.ini file in Galaxy install
Appreciated 4.0 years ago, created a post with more than 5 votes. For Galaxy-specific Biostar Instance
Supporter 4.0 years ago, voted at least 25 times.

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