Mercurial > repos > rmarenco > hub_archive_creator
diff hub-archive-creator-1.6/README.md @ 0:163b2de763ea draft
Upload the full hubArchiveCreator archive
| author | rmarenco |
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| date | Tue, 01 Mar 2016 19:43:25 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/hub-archive-creator-1.6/README.md Tue Mar 01 19:43:25 2016 -0500 @@ -0,0 +1,18 @@ +# Hub Archive Creator +This Galaxy tool permits to prepare your files to be ready for Assembly Hub visualization. + +To try the software, you need to have a .gff3 and a .fa as input and set an output filename: +```hubArchiveCreator.py -g test_data/augustusDbia3.gff3 -f test_data/dbia3.fa -o output.zip``` + +You will get a .zip file, that you need to put on a server accessible from the outside. Then use UCSC track hubs fonctionality to see your track. + +## Requirements: +1. You need to install [Mako](http://www.makotemplates.org/download.html) +2. HubArchiveCreator use, for now, tools from UCSC Kent Utils. This repository use the linux.x86_64/ ones, but you NEED to replace them accordingly to your architecture. +Here is the link to get these tools: http://hgdownload.soe.ucsc.edu/admin/exe/ + +### Install in Galaxy +1. Take the hubAssembly.py in the hubaDatatype folder, and add it into lib/galaxy/datatypes in your Galaxy instance +2. Add this line in config/datatypes_conf.xml: +```<datatype extension="huba" type="galaxy.datatypes.hubAssembly:HubAssembly" display_in_upload="true" />``` +3. Look into hubaDatatype/README.md for more informations