Hi Björn, Thanks Björn for the reply , But pdb file format is working not working auto option ..it works with by selecting PDB file format option in galaxy ... do i have to modify any registry.py file or any other file ?  i have included only init ,init_meta  and sniff  function  in PDB ( txt ) in data.py file .. Regards shahsi ________________________________ From: Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> To: shashi shekhar <me_shashi29@yahoo.co.in> Cc: Peter Cock <p.j.a.cock@googlemail.com>; Galaxy Dev <galaxy-dev@bx.psu.edu> Sent: Tuesday, 25 June 2013 3:40 PM Subject: Re: [galaxy-dev] How to enable auto option for newly added file formats Hi Shashi, can you try my molecule datatype repository? http://testtoolshed.g2.bx.psu.edu/view/bgruening/chemical_datatypes The source is here: https://github.com/bgruening/galaxytools/blob/master/chemicaltoolbox/datatyp... I have also a PDB definition inluded maybe that works for you and we can join the effort. Thanks, Bjoern

Hi, yeah i followd this tutorial .. http://wiki.galaxyproject.org/Admin/Datatypes/Adding%20Datatypes

yeah ,i have tested  my sniff methods .it works fine .when i upload any pdb file by using  the option file format (PDB ) , it works  but with auto option it doesnot work ........ regards shashi

______________________________________________________________________ From: Peter Cock <p.j.a.cock@googlemail.com> To: shashi shekhar <me_shashi29@yahoo.co.in> Cc: Galaxy Dev <galaxy-dev@bx.psu.edu> Sent: Tuesday, 25 June 2013 1:14 PM Subject: Re: [galaxy-dev] How to enable auto option for newly added file formats

On Tue, Jun 25, 2013 at 8:28 AM, shashi shekhar <me_shashi29@yahoo.co.in> wrote:

...

Hi,

yeah ..it is same thing... but i followed the  galaxy -datatype(how to add new file format)tutorial ..but still  my newly added file format is not working with auto option ....it always display txt format ..it is similar to txt format with some specific property ..

Reagrds shashi

So you've followed this: http://wiki.galaxyproject.org/Admin/Datatypes/Adding%20Datatypes

Have you tested your sniff method works? Have you checked the order the file types are tested?

Peter

P.S. Don't forget to CC the mailing list.

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Hi Bjorn , thanks for reply ...my problem has solved ...it's working now .. regards shashi ________________________________ From: Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> To: shashi shekhar <me_shashi29@yahoo.co.in> Cc: Peter Cock <p.j.a.cock@googlemail.com>; Galaxy Dev <galaxy-dev@bx.psu.edu> Sent: Tuesday, 25 June 2013 9:44 PM Subject: Re: [galaxy-dev] How to enable auto option for newly added file formats Am Dienstag, den 25.06.2013, 19:15 +0800 schrieb shashi shekhar:

Hi Björn,

Thanks Björn for the reply ,

But pdb file format is working not working auto option ..it works with by selecting PDB file format option in galaxy ... do i have to modify any registry.py file or any other file ?  i have included only init ,init_meta  and sniff  function  in PDB ( txt ) in data.py file ..

Yes you have to modify the registry.py file. And you need to take care of the order of registered sniffers, these are crucial. Or you just install these data types from my tool shed repository :) Cheers, Bjoern

Regards shahsi

______________________________________________________________________ From: Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> To: shashi shekhar <me_shashi29@yahoo.co.in> Cc: Peter Cock <p.j.a.cock@googlemail.com>; Galaxy Dev <galaxy-dev@bx.psu.edu> Sent: Tuesday, 25 June 2013 3:40 PM Subject: Re: [galaxy-dev] How to enable auto option for newly added file formats

Hi Shashi,

can you try my molecule datatype repository?

http://testtoolshed.g2.bx.psu.edu/view/bgruening/chemical_datatypes

The source is here: https://github.com/bgruening/galaxytools/blob/master/chemicaltoolbox/datatyp...

I have also a PDB definition inluded maybe that works for you and we can join the effort.

Thanks, Bjoern

...

Hi, yeah i followd this tutorial .. http://wiki.galaxyproject.org/Admin/Datatypes/Adding%20Datatypes

yeah ,i have tested  my sniff methods .it works fine .when i upload any pdb file by using  the option file format (PDB ) , it works  but with auto option it doesnot work ........ regards shashi

______________________________________________________________________

...

From: Peter Cock <p.j.a.cock@googlemail.com> To: shashi shekhar <me_shashi29@yahoo.co.in> Cc: Galaxy Dev <galaxy-dev@bx.psu.edu> Sent: Tuesday, 25 June 2013 1:14 PM Subject: Re: [galaxy-dev] How to enable auto option for newly added file formats

On Tue, Jun 25, 2013 at 8:28 AM, shashi shekhar <me_shashi29@yahoo.co.in> wrote:

...

Hi,

yeah ..it is same thing... but i followed the  galaxy -datatype(how to add new file format)tutorial ..but still  my newly added file format is not working with auto option ....it always display txt format ..it is similar to txt format with some specific property ..

Reagrds shashi

So you've followed this: http://wiki.galaxyproject.org/Admin/Datatypes/Adding%20Datatypes

Have you tested your sniff method works? Have you checked the order the file types are tested?

Peter

P.S. Don't forget to CC the mailing list.

___________________________________________________________ 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/