Mercurial > repos > geert-vandeweyer > clusterfast

comparison readme.rst @ 25:89f22d2a9dfe draft

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small change to notify users of minimal velvet threads needed
author geert-vandeweyer
date Mon, 11 Aug 2014 05:21:21 -0400
parents 032b13f5b087
children
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19 After installation, you need to update several environment settings for the dependencies to work correctly. 19 After installation, you need to update several environment settings for the dependencies to work correctly.
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21 - NOVOALIGN path: (novoalign binaries are NOT automatically installed, see package_novoalign for details ) : <tool_dependency_dir>/environment_settings/NOVOALIGN_PATH/geert-vandeweyer/package_novoalign/<hash_string>/env.sh 21 - NOVOALIGN path: (novoalign binaries are NOT automatically installed, see package_novoalign for details ) : <tool_dependency_dir>/environment_settings/NOVOALIGN_PATH/geert-vandeweyer/package_novoalign/<hash_string>/env.sh
22 - index files (clusterfast.loc holds info on 2bit/fasta/novoalign references) : <path>/galaxy-dist/tool-data/<toolshed>/repos/geert-vandeweyer/clusterfast/<hash>/clusterfast.loc. Read comments for the exact syntax. 22 - index files (clusterfast.loc holds info on 2bit/fasta/novoalign references) : <path>/galaxy-dist/tool-data/<toolshed>/repos/geert-vandeweyer/clusterfast/<hash>/clusterfast.loc. Read comments for the exact syntax.
23 - number of velvet threads : <tool_dependency_dir>/environment_settings/OMP_THREAD_LIMIT/geert-vandeweyer/package_velvet/<hash_string>/env.sh 23 - number of velvet threads : <tool_dependency_dir>/environment_settings/OMP_THREAD_LIMIT/geert-vandeweyer/package_velvet/<hash_string>/env.sh . Note: Set this value to at least 2, or velveth hangs.
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