User: Lei Yan

gravatar for Lei Yan
Lei Yan130
Reputation:
130
Status:
New User
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Last seen:
4 years, 1 month ago
Joined:
5 years, 1 month ago
Email:
l*********@gmail.com

Posts by Lei Yan

<prev • 13 results • page 1 of 2 • next >
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Answer: A: Need Your Helps About Galaxy
... Thanks Jen and James so much. Now it looks like I have fixed the problem about tophat_indexes_color, because "Tophat for SOLiD" tool is running in my account (still running, but not finished yet). Here is a summary: - The hg19 index files for colorspace have been there, so I don’t need to bu ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Hi all, We are trying to use “Tophat for SOLiD”. But this tool (Tophat for SOLiD) does not seem to be linked to the reference genomes that are installed. I can see those genomes on the Tophat for illumina tool and the other tools that require a reference genome. Please see attachments. Does anybody ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Dear Dannon, Since the log files are quite large, so I put them onto a server. Now you can get them from here: http://tyche.uthsc.edu/ftp/user/leiyan/20131009_galaxylog/ Thanks again. Lei Yan Center for Integrative and Translational Genomics The University of Tennessee Health Science Center ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Dear Dannon, When I click the four “Log” links for Galaxy, PostgreSQL, SGE, and Galaxy Reports on the Admin Console interface, all of they throw exceptions. Please see attachments. There is another way I can get the log files? Thanks. Lei Yan Center for Integrative and Translational Genomics The ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... I don't think this is the reason. Lei Yan Center for Integrative and Translational Genomics The University of Tennessee Health Science Center ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... I tried, and I can upload files with URL on http://galaxyclass.genenetwork.org/. Lei Yan Center for Integrative and Translational Genomics The University of Tennessee Health Science Center ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Hi all, I found some very strange problems on our cloud Galaxy ( http://galaxyclass.genenetwork.org/) recently, EVEN I did nothing. - It shows galaxy and galaxyIndices have errors in CloudMan Admin Console. - This Galaxy had 3 nodes before, but right now only one node is there. - Galax ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Hi all, Larry got another problem on our cloud Galaxy ( http://galaxyclass.genenetwork.org/). He cannot execute some commands successfully: /opt/sge/default/spool/execd/ip-10-184-11-27/job_scripts/152: line 13: wigToBigWig: command not found /opt/sge/default/spool/execd/ip-10-152-136-219/job_script ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Hi all, I think I have fixed this bug, and Galaxy GUI can execute MACS successfully on my cloud Galaxy. I did the following changes to fix it: - It looks like the latest version of cloud Galaxy uses MACS 1.3, so I changed the default: default -> /mnt/galaxy/tools/macs/1.3.7.1/ - Ther ...
written 4.2 years ago by Lei Yan130
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Comment: C: Need Your Helps About Galaxy
... Hi all, http://galaxyclass.genenetwork.org/ This cloud Galaxy was built by Cloud Galaxy Launch ( https://main.g2.bx.psu.edu/cloudlaunch) yesterday. I found two problems about MACS on it: - When I execute MACS on Galaxy GUI, I got a “not found” error. Please see attachment (error1.png). - ...
written 4.2 years ago by Lei Yan130

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