Admin: Daniel Blankenberg

gravatar for Daniel Blankenberg
Daniel Blankenberg ♦♦ 1.6k
Reputation:
1,640
Status:
Trusted
Location:
United States
Website:
https://dblankenberg.org/
Twitter:
DBlankenberg
Scholar ID:
Google Scholar Page
Last seen:
3 weeks ago
Joined:
9 years, 2 months ago
Email:
d**@bx.psu.edu

Posts by Daniel Blankenberg

<prev • 162 results • page 1 of 17 • next >
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Answer: A: Attribute error when running some tools after updating to galaxy 17.05
... Hi David, Is it possible that you have a ZIP file instead of a gzip'd file? A potential fix has been submitted here: https://github.com/galaxyproject/galaxy/pull/4135. If you like, you can try to apply the patch before it is committed and let us know if it helps (https://github.com/galaxyproject/ ...
written 22 days ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: IGV integration with Galaxy
... 1. By default, this setup is not required. In the case of the linked configuration, they have setup authentication through apache in their proxy. This rule simply allows unauthenticated access to these files. IGV runs as a Java webstart application on the user’s local machine, and d ...
written 9 weeks ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: How can I get the ip address of a running Galaxy instance
... If you are trying to do this in a tool, you may want to look at the baseurl parameter type. Example: ...
written 10 weeks ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: Tophat execution error
... You should be able to define a "default" samtools under your tool dependency directory that will be pick-upped by the set metadata process. See e.g. https://wiki.galaxyproject.org/Admin/Config/ToolDependencies ...
written 8 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: Cannot see "admin" on masthead
... Did you 1. Restart Galaxy? 2. Reload your Galaxy browser window? ...
written 8 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: C: Error while generating index files from MAFs for local galaxy
... This appears to be a limitation of the bx-python library. I've submitted an issue here: https://github.com/bxlab/bx-python/issues/8 ...
written 10 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: Bowtie2 error on locally installed Galaxy : unable to finish job
... The Cause of this error is due to the set_metadata process not having access to samtools when trying to index the BAM dataset's file. You should be able to setup a `default` samtools version and have that sourced through Galaxy's dependency resolution systems.   Alternatively, you can add `samtool ...
written 16 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: Cannot see the data in history
... Your usage has been recalculated. Please let us know if you encounter additional issues. Thanks for using Galaxy. ...
written 22 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: bwa mem index builder error
... As the admin user, can you go into the analysis interface, click on saved histories --> switch to the 'Data Manager History (automatically created)', then click the 'bug' link for the failed dataset and see if there is any info there?   Thanks for using Galaxy, Dan ...
written 23 months ago by Daniel Blankenberg ♦♦ 1.6k
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Answer: A: Get Galaxy locally
... Hi Nagul, See http://getgalaxy.org/. Dan ...
written 23 months ago by Daniel Blankenberg ♦♦ 1.6k

Latest awards to Daniel Blankenberg

Scholar 9 weeks ago, created an answer that has been accepted. For A: Tophat execution error
Scholar 10 weeks ago, created an answer that has been accepted. For A: Tophat execution error
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: How can I get the ip address of a running Galaxy instance
Scholar 8 months ago, created an answer that has been accepted. For A: Tophat execution error
Scholar 15 months ago, created an answer that has been accepted. For A: Syntax Error User-Provided Input
Scholar 21 months ago, created an answer that has been accepted. For A: Syntax Error User-Provided Input
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Built-in indexes not working in Local Galaxy Instance
Scholar 2.2 years ago, created an answer that has been accepted. For A: Built-in indexes not working in Local Galaxy Instance
Scholar 2.4 years ago, created an answer that has been accepted. For A: Built-in indexes not working in Local Galaxy Instance
Scholar 2.6 years ago, created an answer that has been accepted. For A: extraxt interval from maf
Teacher 2.7 years ago, created an answer with at least 3 up-votes. For A: can't upload data via FTP
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: can't upload data via FTP
Centurion 2.9 years ago, created 100 posts.
Commentator 2.9 years ago, created a comment with at least 3 up-votes. For C: Closing window while there is a pending/running job
Scholar 3.0 years ago, created an answer that has been accepted. For A: How to pass the genome nameor dbkey to a tool

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