User: Brian Griffiths

Reputation:
20
Status:
New User
Location:
United States
Last seen:
2 years, 3 months ago
Joined:
2 years, 10 months ago
Email:
c*******@gmail.com

Graduate student at UMass Boston

Posts by Brian Griffiths

<prev • 9 results • page 1 of 1 • next >
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Comment: C: TopHat error only on one dataset?
... This is a local instance, so doesn't have anything to do with usegalaxy.org's recent problems. ...
written 2.3 years ago by Brian Griffiths20
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TopHat error only on one dataset?
... Hi all, I've run my RNA-Seq data through tophat for the rn5 genome and it worked as expected. I wanted to compare it to some old data, and so I tried realigning to the rn4 genome. However, one of my samples failed. I tried rerunning it, and it failed again. I reset the computer, started galaxy and ...
tophat written 2.3 years ago by Brian Griffiths20 • updated 2.3 years ago by ablanchetcohen10
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Answer: C: Python Error? unexpected keyword argument
... This error was fixed with this solution: https://biostar.usegalaxy.org/p/13321/ ...
written 2.3 years ago by Brian Griffiths20
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Comment: A: Python Error? unexpected keyword argument
... If I try to install samtools to get rid of that error in the beginning, I get another error: THIS ERROR WAS FIXED (see comment) ---------------------------------- *object of type 'bool' has no len(), which I seem to get a lot when I watch the terminal. galaxy.tools.toolbox.base DEBUG 2016-04-19 12 ...
written 2.3 years ago by Brian Griffiths20
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Comment: A: Python Error? unexpected keyword argument
... this comment has been removed because the error was fixed (see below) ...
written 2.3 years ago by Brian Griffiths20
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Comment: A: Python Error? unexpected keyword argument
... I uninstalled MACS and MACS2 and it did not fix the problem. ...
written 2.3 years ago by Brian Griffiths20
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Python Error? unexpected keyword argument [fixed]
... Hi, I recently started getting the following error whenever I try to do anything. The last things I did were install some tools from the toolshed (MACS and MACS2). Those worked fine. Then I ran Tophat on some files. When I tried to run cufflinks, I started getting the error. When I try to upload a ...
galaxy software error written 2.3 years ago by Brian Griffiths20
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Comment: C: "Unable to finish job" but no errors, data seems to be there?
... Ended up being bit having sam tools installed locally. I saw that suggestion a few questions down. It works now. :) ...
written 2.9 years ago by Brian Griffiths20
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"Unable to finish job" but no errors, data seems to be there?
... Hi, I am running a local instance of galaxy on a dual-xeon chip MB with 128 GB of ram. I installed tophat, but when I run my fastq files through it I get "Unable to finish job." The history turns red, and it says no errors were logged. There appears to be full datasets, but they are still marked ...
tophat written 2.9 years ago by Brian Griffiths20 • updated 6 months ago by yusheng_tan0

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