Main tool shed installation issues
Hello fellow Galaxy-Dev users, We are having an issue trying to install tools from the main tool shed. Trying to install bowtie2 (or any other tool for that matter) gives us the following error message : Error Traceback: ⇝ URLError: <urlopen error [Errno -2] Name or service not known> Looking further in the error traceback, the url not found in question is this one (in the case of bowtie2): https://toolshed.g2.bx.psu.edu/repository/get_repository_information?repository_ids=126c0918b54596%2066&changeset_revisions=a54de7e658f7 Indeed, copy pasting this URL into a browser gives me the Internal server error page. Anyone knows if this is a widespread issue? Thanks for your feedback! Yves
somehow a space (escaped) got into your id this is the correct url: https://toolshed.g2.bx.psu.edu/repository/get_repository_information?repository_ids=126c0918b5459666&changeset_revisions=a54de7e658f7 I will look around why it got there. On Tue, Sep 16, 2014 at 4:41 PM, Yves Gagnon <yves.gagnon@dnalandmarks.ca> wrote:
Hello fellow Galaxy-Dev users,
We are having an issue trying to install tools from the main tool shed. Trying to install bowtie2 (or any other tool for that matter) gives us the following error message :
*Error Traceback:* ⇝ URLError: <urlopen error [Errno -2] Name or service not known>
Looking further in the error traceback, the url not found in question is this one (in the case of bowtie2):
Indeed, copy pasting this URL into a browser gives me the Internal server error page.
Anyone knows if this is a widespread issue?
Thanks for your feedback!
Yves
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I tried installing this exact repo and changeset on the latest -central galaxy code and encountered no problems. What version of Galaxy are you using. Did you modify it? Martin On Tue, Sep 16, 2014 at 4:44 PM, Martin Čech <marten@bx.psu.edu> wrote:
somehow a space (escaped) got into your id
this is the correct url:
I will look around why it got there.
On Tue, Sep 16, 2014 at 4:41 PM, Yves Gagnon <yves.gagnon@dnalandmarks.ca> wrote:
Hello fellow Galaxy-Dev users,
We are having an issue trying to install tools from the main tool shed. Trying to install bowtie2 (or any other tool for that matter) gives us the following error message :
*Error Traceback:* ⇝ URLError: <urlopen error [Errno -2] Name or service not known>
Looking further in the error traceback, the url not found in question is this one (in the case of bowtie2):
Indeed, copy pasting this URL into a browser gives me the Internal server error page.
Anyone knows if this is a widespread issue?
Thanks for your feedback!
Yves
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Hi Martin, I think that the escaped space was added because of the Interactive traceback display, I had to click a link to display the full URL. The original URL does not contain a space in the repository_id (URL: admin_toolshed/prepare_for_install?tool_shed_url=https://toolshed.g2.bx.psu.edu/&repository_ids=126c0918b5459666&changeset_revisions=a54de7e658f7) I think I pinpointed the issue now. It seems to be a proxy misconfiguration. When I enter the URL on my machine, I do not have any errors. When I do wget on the galaxy server machine, it is there that I have the Name or service not known error. Well, thank you for your quick answer! Yves From: Martin Čech <marten@bx.psu.edu> To: Yves Gagnon <yves.gagnon@dnalandmarks.ca> Cc: galaxy-dev <galaxy-dev@lists.bx.psu.edu> Date: 16/09/2014 04:50 PM Subject: Re: [galaxy-dev] Main tool shed installation issues Sent by: emulatorer@gmail.com I tried installing this exact repo and changeset on the latest -central galaxy code and encountered no problems. What version of Galaxy are you using. Did you modify it? Martin On Tue, Sep 16, 2014 at 4:44 PM, Martin Čech <marten@bx.psu.edu> wrote: somehow a space (escaped) got into your id this is the correct url: https://toolshed.g2.bx.psu.edu/repository/get_repository_information?repository_ids=126c0918b5459666&changeset_revisions=a54de7e658f7 I will look around why it got there. On Tue, Sep 16, 2014 at 4:41 PM, Yves Gagnon <yves.gagnon@dnalandmarks.ca> wrote: Hello fellow Galaxy-Dev users, We are having an issue trying to install tools from the main tool shed. Trying to install bowtie2 (or any other tool for that matter) gives us the following error message : Error Traceback: ? URLError: <urlopen error [Errno -2] Name or service not known> Looking further in the error traceback, the url not found in question is this one (in the case of bowtie2): https://toolshed.g2.bx.psu.edu/repository/get_repository_information?repository_ids=126c0918b54596%2066&changeset_revisions=a54de7e658f7 Indeed, copy pasting this URL into a browser gives me the Internal server error page. Anyone knows if this is a widespread issue? Thanks for your feedback! Yves ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
participants (2)
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Martin Čech -
Yves Gagnon