User: Mark Lindsay

gravatar for Mark Lindsay
Mark Lindsay60
Reputation:
60
Status:
Trusted
Location:
United Kingdom
Last seen:
1 month, 1 week ago
Joined:
4 years, 7 months ago
Email:
m**********@bath.ac.uk

Posts by Mark Lindsay

<prev • 14 results • page 1 of 2 • next >
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Tophat not Running
... Hi I have had Tophat queued for running on the main Galaxy Instance since last Friday (5 days). I just wondered if there are any issue or is there just a backlog? Many thanks Mark ...
rna-seq written 5 weeks ago by Mark Lindsay60 • updated 5 weeks ago by Jennifer Hillman Jackson21k
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Answer: A: Loss of Histories
... Hi Dannon managed to find the lost histories by going to the cog button on the analysis page and then scrolling down to saved histories. For some reason these were available on the view all histories options. Many thanks Mark ...
written 5 weeks ago by Mark Lindsay60
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Loss of Histories
... Dear All in the last week I keep finding that my histories are disappearing from the public Galaxy website. Just wondered if there are any current problems? Best wishes Mark ...
galaxy usegalaxy.org account histories written 9 weeks ago by Mark Lindsay60
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Answer: A: Segmentation and fatal error: Exit code 139 when running CuffDiff/CuffQuant/Cuff
... Hi Jen with regards to your questions 1.  this is a new local. The instance can run Cufflinks and Bowtie. 2.  this maybe the problem. Tools were installed through the toolshed although when I examine the Admin UI many are saying missing tool or repository dependencies 3.  I believe it is the cur ...
written 14 months ago by Mark Lindsay60
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Segmentation and fatal error: Exit code 139 when running CuffDiff/CuffQuant/Cuffnorm
... I have downloaded the latest version (2.2.1.3) of Cuffdiff/Cuffnorm/Cuffquant on a local instance of Galaxy but keep getting a fatal error: Exit Code 139 and a linked segmentation fault: 11 almost immediately after running these programmes. This occurs even when running a single BAM file. I can see ...
galaxy written 14 months ago by Mark Lindsay60
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Deleting histories from Galaxy
... I have deleted and purged various histories from Galaxy but this does not appear free up additional server space. Is there something additional that is required? Mark       ...
galaxy written 15 months ago by Mark Lindsay60 • updated 15 months ago by Jennifer Hillman Jackson21k
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Problems with Cufflinks 2.2.1.0 on local instance
... I have installed the latest version of Cufflinks on my local instance of Galaxy. Whenever I run the tools i.e. CuffDiff I get the following message. Any ideas on how to fix this would be greatly appreciated. Fatal error: Exit code 139 () [09:52:43] Loading reference annotation. [09:52:47] Inspecti ...
cufflinks written 21 months ago by Mark Lindsay60 • updated 21 months ago by michimaurin20
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Loading human hg38 onto local instance
... Dear Galaxy Team I have a Galaxy Instance loaded onto my computer and have been trying to create a DBkey and install the latest human hg38 genome using the 'Create DBkey and Reference Genome' data manager. However, I keep receiving the following error message (this worked fine when downloading the ...
hg38 local install genome datamanagers written 2.4 years ago by Mark Lindsay60 • updated 2.4 years ago by Jennifer Hillman Jackson21k
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Problems with BlastP
... Dear All I am trying to compare two FASTA files using an installed version of BLAST from the toolshed on  a local Galaxy version. When I compare them directly using NCBI BLAST + blastp attempt to produce a BLAST database using makeblastdb I receive the following error Fatal error: Exit code 127 () ...
local config tool toolshed written 2.4 years ago by Mark Lindsay60 • updated 2.4 years ago by Jennifer Hillman Jackson21k
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Answer: A: Snp Finding
... Dear Galaxy Users I wondered if anybody is having the same problem. I am trying to run CuffDiff using the latest version of GenCode18 and keep getting the following error message. Is there a problem with the network or is it me? Best wishes Mark ...
written 3.4 years ago by Mark Lindsay60

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Popular Question 14 months ago, created a question with more than 1,000 views. For Loading human hg38 onto local instance

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