User: TWV

gravatar for TWV
TWV20
Reputation:
20
Status:
New User
Location:
Last seen:
5 months, 3 weeks ago
Joined:
9 months, 1 week ago
Email:
t*******************@kuleuven.be

Posts by TWV

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Tool request - geNorm / NormFinder
... Dear Jennifer, Thanks for you suggestion, I have opened a ticket as instructed. You can close the topic. Kind regards, TWV. ...
written 6 months ago by TWV20
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Tool request - geNorm / NormFinder
... I would like to request a galaxy tool based on either the geNorm or NormFinder algorithms. Both are publicly available and much requested in my lab. I look forward to your responses. Greetings, TWV. ...
wrapper qpcr genorm normfinder development written 6 months ago by TWV20 • updated 6 months ago by Jennifer Hillman Jackson25k
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Comment: C: Making Galaxy Tools run on multiple cores/treads?
... Could you help me figure out why I can't seem to make the NCBI_blast_plus package run multi-threaded? I have tried using different tool IDs, "blast", "ncbi_blast_plus" and "ncbi_plast_plus_tools". But none seem to work... ? Thanks for your help. ...
written 6 months ago by TWV20
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(Closed) Galaxy tool multi-threading
... I have a local instance of galaxy running on a PC with 4 cores (8 threads). When I run a blast, bowtie2 or other similar job, they only ever use 1 thread. I have read that it is possible to setup which tools should use how many jobs by editing config/job_conf.xml. I adapted the setup made in https ...
jobs multithread thread written 6 months ago by TWV20
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Comment: C: Bowtie2 "--no-unal" option causes error
... Dear Jennifer, thanks a lot for your follow-up help. I have updated bowtie2 to the latest version and it does indeed work now. With kind regards! ...
written 6 months ago by TWV20
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Issue "Conda dependency seemingly installed but failed to build job environment." after installing tools
... > I just installed some tools on a local galaxy instance, and soon after > I received the error "Conda dependency seemingly installed but failed > to build job environment." for any job I tried to run, regardless of > uploading files, or using a simple tool from the toolshed. Restarting ...
conda dependency tool written 7 months ago by TWV20 • updated 6 months ago by Jennifer Hillman Jackson25k
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Comment: C: Workflow jobs not running/queueing on a local Galaxy version 17.09
... Searching for "Delay" did not return any hits in the log file ...
written 9 months ago by TWV20
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Comment: C: Bowtie2 "--no-unal" option causes error
... The Galaxy version is 17.09 Local, the Bowtie2 version was 2.3.3.1. I have also tested the 2.3.4 version and have the same error. It seems to work with the version 2.3.2.2 as you suggested. So now what is left is seeing why the newer versions don't work. Greetungs. ...
written 9 months ago by TWV20
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Bowtie2 "--no-unal" option causes error
... When trying to run bowtie2 on a fastqsanger file with any reference genome, enabling the "Suppress SAM records for reads that failed to align" option (**--no-unal**, in order not to get multi-gigabyte SAM files) leads to a tool error. The following error is displayed: > cannot find 'sam' while ...
option bowtie2 sam software error bug written 9 months ago by TWV20 • updated 9 months ago by Jennifer Hillman Jackson25k
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Comment: C: Workflow jobs not running/queueing on a local Galaxy
... - The build version is 17.09 as found through /api/version - The local galaxy is being run on a single PC - The local galaxy is a recent instance, therefore it's hard for me to say whether the problem existed from the start but didn't manifest right away. But I think it is new behaviour - ...
written 9 months ago by TWV20

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