Moderator: Remi Marenco

gravatar for Remi Marenco
Remi Marenco80
Reputation:
80
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Trusted
Location:
Washington DC
Last seen:
1 year, 2 months ago
Joined:
3 years, 4 months ago
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Posts by Remi Marenco

<prev • 11 results • page 1 of 2 • next >
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Answer: A: Galaxy fails on sh run.sh detects python2.6 but I also have anaconda python 2.7
... Hi bleweth, So we can see Galaxy is trying to get the python from `/usr/bin/python` and this is a 2.6 one. What you can do, is to load into `$PYTHONPATH` you Anaconda Python. To do that, create a file called `local_env.sh` in the `config` folder of your Galaxy and put this line inside: PYTHO ...
written 17 months ago by Remi Marenco80
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Answer: A: Galaxy fails on sh run.sh detects python2.6 but I also have anaconda python 2.7
... So, by looking at your logs, you seem to have Conda (with Anaconda). This guy is replacing your python path to its, and Galaxy is not using this one (I am not sure yet why). To verify that can you run these two commands: - `/usr/bin/python --version` => It will give you the version Galaxy is us ...
written 17 months ago by Remi Marenco80
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Answer: A: Galaxy fails on sh run.sh detects python2.6 but I also have anaconda python 2.7
... Hi blewettn, What do you mean by > Can I just modify a component of the run.sh script ? For lisibility, can you edit your post by wrapping the logs with the `code` markup? (It should be the 101010 button on top of the text area) About your question, I think I have run into these issues too: ...
written 17 months ago by Remi Marenco80
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Answer: A: Add a tool to the online version of Galaxy
... Hey Daniel! I am not sure about the process to get a tool integrated into usegalaxy.org. However, if you need a specific tool, available in Tool Shed, you could get your own local Galaxy instance (https://wiki.galaxyproject.org/Admin/GetGalaxy) and install it by becoming an admin over this instanc ...
written 17 months ago by Remi Marenco80
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Answer: A: Cannot set up admin in local galaxy instal
... Hi Danato, First, make sure your `admin_users` email is matching the one you used to register and log in. Second, you need to restart your Galaxy each time you modify your files in `config/`. You can do it in different ways: - If you launched your Galaxy like: `sh run.sh` => Just CTRL+C in t ...
written 19 months ago by Remi Marenco80
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Comment: C: Mac coding environment / Run Planemo and Galaxy under Linux...(Docker?)
... Seems the login is ubuntu and the password ubuntu too (Just for the record so people who read this can know the credentials) ...
written 19 months ago by Remi Marenco80
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Answer: A: Mac coding environment / Run Planemo and Galaxy under Linux...(Docker?)
... Awesome! Trying this out :) ...
written 19 months ago by Remi Marenco80
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Mac coding environment / Run Planemo and Galaxy under Linux...(Docker?)
... Hi! I am writing tools and workflows for Galaxy. I am under a Mac OSX. I found it quite challenging to use all the features available in Galaxy under this Operating System. I don't think pushing more Mac compatibility is realistic and useful (as Galaxy is mostly running under Linux), so I thought ...
code galaxy mac development tool written 19 months ago by Remi Marenco80 • updated 19 months ago by Jennifer Hillman Jackson23k
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Answer: A: Workflow - internal server error
... You could begin by looking into your logs. If you are using Paste, the default httpserver within Galaxy, it will be in your root galaxy folder, named paster.log :) ...
written 20 months ago by Remi Marenco80
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Comment: C: Pulsar architecture tips
... Hi Bjoern! Thanks for taking the time to answer to my question. IT did not want to install Pulsar on the Cluster directly (It makes sense), We now found a way to make it work: IT provided us a Cluster Submit Node in a VM and we installed Pulsar on it. Pulsar uses DRMAA/LSF ;). ...
written 2.2 years ago by Remi Marenco80

Latest awards to Remi Marenco

Teacher 19 months ago, created an answer with at least 3 up-votes. For A: Cannot set up admin in local galaxy instal

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