User: christophe.habib

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France
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Posts by christophe.habib

<prev • 168 results • page 1 of 17 • next >
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How to deal with PROXY when installing new local instance
... Hello, I am trying to install a new local instance of galaxy. So I did as always : git clone -b release_16.10 https://github.com/galaxyproject/galaxy.git ./run.sh And I have this error related to proxy : https://gist.github.com/anonymous/66b15dfc43e738f49bc299ac67974b8c I can have a wo ...
local proxy written 3 months ago by christophe.habib330
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Comment: C: How to find out how long each tool run on in galaxy
... I just checked, in my job_metrics_conf.xml I have and . I have 2 instances on 2 different servers both on 16.01, on the first one it works fine and I see all I want with the "view details", and on the second one I have no such informations. How could I explain this behaviour ? PS : apparently th ...
written 8 months ago by christophe.habib330
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Answer: A: Configure galaxy run on a multi-core server
... As Devon said you need to change the job runner, do you have any scheduler on your serv ? Here is my setup with HTCondor, if you have any other one you will need to modify this obviously. You need to take care that the IPs are matching each others in the differents configuration files. This setup ...
written 8 months ago by christophe.habib330
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Comment: C: increasing the number of concurent jobs that can be run
... Hi Guy, I think what you need is here in the job_conf.xml : 14 13 0 48:00:00 Did you try this ? ...
written 8 months ago by christophe.habib330
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Comment: C: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... I just tried a minimal workflow, imported the 2 input that create the bed file. It create a file with display_type not null. So this lead is wrong it is not the reason of this behaviour. ...
written 8 months ago by christophe.habib330
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Comment: C: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... So I wonder if the module that download the file is using the display type in any way ? I would like to try to modify the display types, but I can't manage to do it with bioblend. Any advice ? ...
written 8 months ago by christophe.habib330
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Answer: A: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... Well actually it works only for a bed file that I have imported with get data. Not with the existing one, generated with my workflow. So the problem is not solved. I tried to compare the dataset, I see something strange, the display_type is empty in the dataset that I can download : https://gist. ...
written 8 months ago by christophe.habib330
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Answer: A: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... Ok the problem was solved by upgrading Bioblend... pip install --upgrade bioblend It's ridiculous, but i'll leave this post, if someone meets the same issue ... ...
written 8 months ago by christophe.habib330
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Comment: C: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... In my nginx config file I have add these lines as suggested here : https://wiki.galaxyproject.org/Admin/Config/nginxProxy to send files with Nginx location /_x_accel_redirect/ { internal; alias /; } Do I need to add something related to the hospital proxy ? What I don't und ...
written 8 months ago by christophe.habib330
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Comment: C: Bioblend download bed/interval file : HistoryDatasetAssociation not accessible
... I just tested this on another instance, in another server, and it works. The instance where it doesn't works is located in a hospital where everything go through a proxy. I have already configurated the proxy in supervisor for uwsgi and handler. When I try to get the file with wget I have this erro ...
written 8 months ago by christophe.habib330

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Teacher 8 months ago, created an answer with at least 3 up-votes. For C: This tool was disabled before the job completed
Scholar 11 months ago, created an answer that has been accepted. For A: An error adding datasets to a New data library
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