Hi everyone, In my local Galaxy,when I want to reset my Login password,some error occurre :"Mail is not configured for this Galaxy instance. Please contact an administrator. "Could anyone tell me some imformation about how to configure the mail for my Galaxy instance? Thank you very much.
shenwiyn
Hi Shenwiyn
You need to specify a SMTP server. Have a look at the 'smtp_server' settings in your "universe_wsgi.ini" file.
Regards, Hans-Rudolf
On 07/31/2013 04:19 PM, shenwiyn wrote:
Hi everyone, In my local Galaxy,when I want to reset my Login password,some error occurre :"Mail is not configured for this Galaxy instance. Please contact an administrator. "Could anyone tell me some imformation about how to configure the mail for my Galaxy instance? Thank you very much.
shenwiyn
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/
I installed a local instance of GALAXY following the instructions at "Get Galaxy ..." in the Wiki. It installed ok, but when I tried the Bowtie2 mapper with a test data set, I noticed that the reference genomes are missing. How can I get the reference genomes (e.g. latest version of mouse and human) and integrate them into Galaxy? Or is there a Galaxy version available that has the genomes already installed?
Thanks
Gerald
Hi, I think you can get reference genomes from UCSC,and then make Bowtie2 index data by bowtie2-build.Other way you can try rsync to get the index files ,for more information you can see http://wiki.galaxyproject.org/Admin/Data%20Integration . Hope to help you.
shenwiyn
From: Gerald Bothe Date: 2013-08-01 01:16 To: galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] reference genomes missing I installed a local instance of GALAXY following the instructions at "Get Galaxy ..." in the Wiki. It installed ok, but when I tried the Bowtie2 mapper with a test data set, I noticed that the reference genomes are missing. How can I get the reference genomes (e.g. latest version of mouse and human) and integrate them into Galaxy? Or is there a Galaxy version available that has the genomes already installed? Thanks
Gerald
Also check http://support.illumina.com/sequencing/sequencing_software/igenome.ilmn which includes indices for Bowtie2 [see ftp://ussd-ftp.illumina.com/README.txt].
From: shenwiyn <shenwiyn@gmail.commailto:shenwiyn@gmail.com> Reply-To: shenwiyn <shenwiyn@gmail.commailto:shenwiyn@gmail.com> Date: Thursday, August 1, 2013 3:17 AM To: Gerald Bothe <g_bothe@yahoo.commailto:g_bothe@yahoo.com>, "galaxy-dev@lists.bx.psu.edumailto:galaxy-dev@lists.bx.psu.edu" <galaxy-dev@lists.bx.psu.edumailto:galaxy-dev@lists.bx.psu.edu> Subject: Re: [galaxy-dev] reference genomes missing
Hi, I think you can get reference genomes from UCSChttp://http://hgdownload.soe.ucsc.edu/downloads.html,and then make Bowtie2 index data by bowtie2-build.Other way you can try rsync to get the index files ,for more information you can see http://wiki.galaxyproject.org/Admin/Data%20Integration . Hope to help you.
________________________________ shenwiyn
From: Gerald Bothemailto:g_bothe@yahoo.com Date: 2013-08-01 01:16 To: galaxy-dev@lists.bx.psu.edumailto:galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] reference genomes missing I installed a local instance of GALAXY following the instructions at "Get Galaxy ..." in the Wiki. It installed ok, but when I tried the Bowtie2 mapper with a test data set, I noticed that the reference genomes are missing. How can I get the reference genomes (e.g. latest version of mouse and human) and integrate them into Galaxy? Or is there a Galaxy version available that has the genomes already installed? Thanks
Gerald
Hi Hans-Rudolf, Thank you very much for you help.Actually I want some more information about how to configure 'smtp_server' in "universe_wsgi.ini".Could you show me some samples to have a look please?
Regards, shenwiyn
From: Hans-Rudolf Hotz Date: 2013-07-31 23:40 To: shenwiyn CC: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] Mail is not configured for this Galaxy instance. Hi Shenwiyn
You need to specify a SMTP server. Have a look at the 'smtp_server' settings in your "universe_wsgi.ini" file.
Regards, Hans-Rudolf
On 07/31/2013 04:19 PM, shenwiyn wrote:
Hi everyone, In my local Galaxy,when I want to reset my Login password,some error occurre :"Mail is not configured for this Galaxy instance. Please contact an administrator. "Could anyone tell me some imformation about how to configure the mail for my Galaxy instance? Thank you very much.
shenwiyn
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/
On 08/06/2013 08:17 AM, shenwiyn wrote:
Hi Hans-Rudolf, Thank you very much for you help.Actually I want some more information about how to configure 'smtp_server' in "universe_wsgi.ini".Could you show me some samples to have a look please?
you need the address of your smtp server, eg:
smtp_server = abcd.fmi.ch
Regards, shenwiyn *From:* Hans-Rudolf Hotz mailto:hrh@fmi.ch *Date:* 2013-07-31 23:40 *To:* shenwiyn mailto:shenwiyn@gmail.com *CC:* galaxy-dev@lists.bx.psu.edu mailto:galaxy-dev@lists.bx.psu.edu *Subject:* Re: [galaxy-dev] Mail is not configured for this Galaxy instance. Hi Shenwiyn You need to specify a SMTP server. Have a look at the 'smtp_server' settings in your "universe_wsgi.ini" file. Regards, Hans-Rudolf On 07/31/2013 04:19 PM, shenwiyn wrote:
Hi everyone, In my local Galaxy,when I want to reset my Login password,some error occurre :"Mail is not configured for this Galaxy instance. Please contact an administrator. "Could anyone tell me some imformation about how to configure the mail for my Galaxy instance? Thank you very much.
shenwiyn
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 Hans-Rudolf, Apologies for the delay.Thank you very nuch for your help.My problem solved successfully after 'smtp_server' settings in my "universe_wsgi.ini" file.
shenwiyn
From: Hans-Rudolf Hotz Date: 2013-07-31 23:40 To: shenwiyn CC: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] Mail is not configured for this Galaxy instance. Hi Shenwiyn
You need to specify a SMTP server. Have a look at the 'smtp_server' settings in your "universe_wsgi.ini" file.
Regards, Hans-Rudolf
On 07/31/2013 04:19 PM, shenwiyn wrote:
Hi everyone, In my local Galaxy,when I want to reset my Login password,some error occurre :"Mail is not configured for this Galaxy instance. Please contact an administrator. "Could anyone tell me some imformation about how to configure the mail for my Galaxy instance? Thank you very much.
shenwiyn
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/
galaxy-dev@lists.galaxyproject.org
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Gerald Bothe -
Hans-Rudolf Hotz -
Maddhi, Srinivas -
shenwiyn