NgsCctsBuildVicuna

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Revision as of 05:53, 9 January 2013 by Curtish@uab.edu (talk | contribs) (Created page with "= Build/Install Broad's Vicuna = == pre-requisites == === NCBI toolkit 7.0.0 === # download cd /share/apps/ngs-ccts/downloads wget ftp://ftp.ncbi.nih.gov/toolbox/ncbi...")
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Attention: Research Computing Documentation has Moved
https://docs.rc.uab.edu/


Please use the new documentation url https://docs.rc.uab.edu/ for all Research Computing documentation needs.


As a result of this move, we have deprecated use of this wiki for documentation. We are providing read-only access to the content to facilitate migration of bookmarks and to serve as an historical record. All content updates should be made at the new documentation site. The original wiki will not receive further updates.

Thank you,

The Research Computing Team

Build/Install Broad's Vicuna

pre-requisites

NCBI toolkit 7.0.0

 # download
 cd /share/apps/ngs-ccts/downloads
 wget ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/ARCHIVE/7_0_0/ncbi_cxx--7_0_0.tar.gz
 # uncompress
 cd ..
 tar xzvf ../downloads/ncbi_cxx--7_0_0.tar.gz
 cd ncbi_cxx--7_0_0
 # bulid
 ./con�figure --prefi�x=/share/apps/ngs-ccts/ncbi_cxx--7_0_0 --with-optimization --with-mt --with-dll
 make

Vicuna

download

 # download - by hand - requires registration
 cd /share/apps/ngs-ccts/downloads
 firefox http://www.broadinstitute.org/scientific-community/science/projects/viral-genomics/vicuna
 mv vicuna.zip vicuna.v1.2.zip
 # uncompress
 cd ..
 unzip downloads/vicuna.v1.2.zip  -x '__MACOSX/*'
 

configure & build

 cd /share/apps/ngs-ccts/VICUNA_v1.2/src
 # patch in NCBI C++ library path
 sed -i -c -e 's|MYPATH=.*|MYPATH=/share/apps/ngs-ccts/ncbi_cxx--7_0_0|' Maketest
 
 # !! Waiting for NCBI to finish building
 make