User: mdgronke

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mdgronke10
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Last seen:
3 months ago
Joined:
4 months, 1 week ago
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m*******@ncsu.edu

Posts by mdgronke

<prev • 4 results • page 1 of 1 • next >
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Comment: C: Creating simple tool to downsample sam files, doesn't complete
... I'll check out the downsampling tool, thanks. We're migrating from Mobyle so at the moment I'm trying to figure out which tools already exist in the toolshed. As far as planemo, I have ran a lint on it and it said it validated the xml tags, so I didn't know where the problem lay. ...
written 3 months ago by mdgronke10
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Creating simple tool to downsample sam files, doesn't complete
... I've written a simple tool to downsample files with a script I am running. It appears to run successfully from the std.err output, but it gives a fail when I run it in Galaxy. I'm trying to figure out what's going on. Here's the code: Downsamples a SAM file downsample_ ...
galaxy xml sam mytools tools written 3 months ago by mdgronke10 • updated 3 months ago by Jennifer Hillman Jackson25k
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Answer: A: "When available, install externally managed dependencies (e.g. conda)? Beta" is
... I figured out the problem. I did not have bzip2 installed, which meant the conda install did not properly work. It was shown here when I deleted the _conda/ folder and tried re-running run.sh. galaxy.tools.deps.conda_util INFO 2018-04-06 15:32:19,516 Installing conda, this may take several minutes ...
written 4 months ago by mdgronke10
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"When available, install externally managed dependencies (e.g. conda)? Beta" is nowhere to be found. How to fix?
... I believe I'm running the latest version of Galaxy Project, as I installed it from the site last week, so version 18,01 I am trying to install Trimmomatic from the Tool Shed. I get the message that: "*This repository defines tool requirements that cannot be installed through the Tool Shed.Please ac ...
galaxy conda written 4 months ago by mdgronke10

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