[galaxy-dev] Set build when discovering output in collection

2015-06-26 Thread Alexander Vowinkel
Hi,

as many of you probably know by now,
I have a tool that creates an output collection
by discovering the datasets in this collection
like propsed there: [1]

Specifically I have a fastq input with set build
information (a ref genome).
The output is a collection of fastq files.
After I managed to give them the same format
like the input (hacky version),
I now want them to adopt the build ID.
How can I do that?

Thanks,
Alexander


[1]
https://bitbucket.org/galaxy/galaxy-central/pull-request/634/allow-tools-to-explicitly-produce-dataset/diff
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Re: [galaxy-dev] Set build when discovering output in collection

2015-06-26 Thread Alexander Vowinkel
FOR GOD'S SAKE SEARCH THE ARCHIVE !!!

http://dev.list.galaxyproject.org/Database-Build-td4140140.html

https://github.com/galaxyproject/tools-devteam/blob/master/tools/tophat2/tophat2_wrapper.xml#L313

2015-06-26 21:58 GMT-05:00 Alexander Vowinkel vowinkel.alexan...@gmail.com
:

 Hi,

 as many of you probably know by now,
 I have a tool that creates an output collection
 by discovering the datasets in this collection
 like propsed there: [1]

 Specifically I have a fastq input with set build
 information (a ref genome).
 The output is a collection of fastq files.
 After I managed to give them the same format
 like the input (hacky version),
 I now want them to adopt the build ID.
 How can I do that?

 Thanks,
 Alexander


 [1]
 https://bitbucket.org/galaxy/galaxy-central/pull-request/634/allow-tools-to-explicitly-produce-dataset/diff

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Re: [galaxy-dev] Set build when discovering output in collection

2015-06-26 Thread Alexander Vowinkel
And the corresponding pull request:
https://github.com/galaxyproject/tools-devteam/pull/173

The BWA github-repo is newer than what is on the toolshed, right? When do
you update the toolshed?

Best,
Alexander

2015-06-26 22:17 GMT-05:00 Alexander Vowinkel vowinkel.alexan...@gmail.com
:

 FOR GOD'S SAKE SEARCH THE ARCHIVE !!!

 http://dev.list.galaxyproject.org/Database-Build-td4140140.html


 https://github.com/galaxyproject/tools-devteam/blob/master/tools/tophat2/tophat2_wrapper.xml#L313

 2015-06-26 21:58 GMT-05:00 Alexander Vowinkel 
 vowinkel.alexan...@gmail.com:

 Hi,

 as many of you probably know by now,
 I have a tool that creates an output collection
 by discovering the datasets in this collection
 like propsed there: [1]

 Specifically I have a fastq input with set build
 information (a ref genome).
 The output is a collection of fastq files.
 After I managed to give them the same format
 like the input (hacky version),
 I now want them to adopt the build ID.
 How can I do that?

 Thanks,
 Alexander


 [1]
 https://bitbucket.org/galaxy/galaxy-central/pull-request/634/allow-tools-to-explicitly-produce-dataset/diff



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