Details
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Type:
Task
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:1
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Epic Link:
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Sprint:Spring 2 2021 Apr 5 - Apr 16, Spring 3 2021 Apr 19 - Apr 30, Spring 4 2021 May 3 - May 14, Spring 5 2021 May 17 - May 28, Spring 6 2021 May 31 - June 11, Summer 1 2021 Jun 14 - Jun 25, Summer 2 2021 Jun 28 - Jul 9
Description
The Quickload converter site will read metadata configuration files from a Track Hub site and translate the information over to the IGB Quickload specification.
Before we can write the converter code, we first must define the structure of an IGB quickload site, which includes the following resources:
- listing of genome versions supported by the site
- for those genomes, a listing of their sequence names and sizes
- file resources associated with each genome version, and where IGB can find them on the Internet (or on the user's local system)
Review the specification for an IGB Quickload site. Also, browse the existing Quickload sites using their Web interfaces.
Using this info, develop a first draft description of how the different entities related to a Quickload site map onto a Track Hub site.
IGB quickload documentation:
Quickloads already available in IGB:
- Quickload main: http://igbquickload.org/quickload/
- RNA-Seq quickload: http://igbquickload.org/rnaseq
- ChIP-Seq quickload: http://igbquickload.org/dnaseq
- BAR quickload: http://igbquickload.org/bar
- Quickload main subversion repository: https://svn.bioviz.org/viewvc/genomes/quickload
Notes on Quickload vs. UCSC structure: https://docs.google.com/document/d/1BV5biFJnLKkSzYYtLg_D9rtxbRi5PASNuD311GEC2TM/edit?usp=sharing