User: david.a.morais

gravatar for david.a.morais
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Canada
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2 days, 16 hours ago
Joined:
3 years, 2 months ago
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Posts by david.a.morais

<prev • 39 results • page 1 of 4 • next >
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Comment: C: Problems after upgrading Galaxy to 18.09
... Hi Jennifer, I usually start Galaxy using supervisord. Following your suggestion, I ran run.sh then upgraded the DB and everything is working fine now. Thank you very much :) ...
written 2 days ago by david.a.morais110
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Comment: C: Problems after upgrading Galaxy to 18.09
... Hi Jennifer, Yes, Galaxy was running inside a virtualenv. The command was: git fetch origin && git checkout release_18.09 && git pull --ff-only origin release_18.09 Cheers ...
written 2 days ago by david.a.morais110
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Problems after upgrading Galaxy to 18.09
... Hello I just tried to upgrade my Galaxy instance from 18.05 to 18.09 but I am unable to restart it. Below is the error message I receive when I try to start Galaxy after the upgrade. File "/cvmfs/soft.galaxy/v2.1/server/.venv/lib/python2.7/site-packages/pkg_resources/__init__.py", line 234 ...
18.05 galaxy upgrade 18.09 written 2 days ago by david.a.morais110 • updated 2 days ago by Jennifer Hillman Jackson25k
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Comment: C: Fail to upload data to local Galaxy 16.07
... It should be inside your /tool-dependency/ directory (after you have it installed via toolshed) Somewhere like /tool-dependency/samtools/0.1.19/iuc/package_samtools_0_1_19/c9bd782f5342/ ...
written 20 months ago by david.a.morais110
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Answer: C: Python modules not found when running job
... I had a similar problem with the upload tool I posted the answer here: https://biostar.usegalaxy.org/p/20865/#21014 I hope this helps you Cheers ...
written 23 months ago by david.a.morais110
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Answer: A: Fail to upload data to local Galaxy 16.07
... SOLUTION After talking to Bjoern Gruening, he found the solution to fix the upload problem. 1. Install samtools 0.1.19 2. Create a symlink inside tool-dependency pointing to the installation dir ln -s /tool-dependency/samtools/0.1.19/iuc/package_samtools_0_1_19/c9bd782f5342/ /tool-depen ...
written 23 months ago by david.a.morais110
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Answer: A: Error installing 'perl' dependency
... Hi I had the same problem recently and the fix is pretty simple. You must install expat-devel (using a package manager), prior to install the tool using the tool shed. yum install expat-devel (on a CentOS) apt-get install expat-devel (Ubuntu) (not sure if on ubuntu this is called expat-devel). A ...
written 23 months ago by david.a.morais110
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Fail to upload data to local Galaxy 16.07
... Hi, I have a new (fresh) install of the Galaxy 16.07 (change_set 727270261750fc71979e7ba9fec96b10091ff104). I am having problems to upload files to this Galaxy. In the logs the error appears as Traceback (most recent call last): File "/srv/galaxy/database/job-working-directory/000/5/set_m ...
set_metadata python lib not found upload written 23 months ago by david.a.morais110 • updated 20 months ago by bcuser3010
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Comment: C: Disappearing history from history panel
... Unfortunately it is not Bjoern, I have tested in multiple browsers and after a complete shutdown of the computer. Also, tried from different computers to no avail. ...
written 24 months ago by david.a.morais110
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Comment: C: Disappearing history from history panel
... HI Jennifer, Thanks for you quick reply to this post. Here are the answers. 1- Yes, the refresh button has be clicked to no avail. 2- The behavior is triggered after the user logs in. In this case the history panel is completely empty. If a user has other functioning history he can switch to tha ...
written 2.0 years ago by david.a.morais110

Latest awards to david.a.morais

Popular Question 20 months ago, created a question with more than 1,000 views. For Passing job_resource_params_conf options to queue
Popular Question 20 months ago, created a question with more than 1,000 views. For Installing MACS on a local Galaxy
Popular Question 20 months ago, created a question with more than 1,000 views. For Install database connection migration
Popular Question 20 months ago, created a question with more than 1,000 views. For Fail to upload data to local Galaxy 16.07
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Fail to upload data to local Galaxy 16.07
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: Error installing 'perl' dependency

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