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annotate README.rst @ 12:7838137cbc7f draft

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planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
author bebatut
date Thu, 02 Jun 2016 02:31:20 -0400
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7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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1 Galaxy wrappers for HUMAnN2
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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2 ===========================
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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3
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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4 Galaxy should be able to automatically install the dependencies, i.e. the
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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5 MetaPhlAn2 binaries.
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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6
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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7 After installation, you must tell Galaxy about the defaut database with
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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8 clade-specific marker genes, and where to find it:
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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10 * Put the ``metaphlan2_db.loc`` file in the ``tool-data/`` folder, after uncommenting last line
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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11 * Download whole MetaPhlan2 source code: https://bitbucket.org/biobakery/metaphlan2/get/2.5.0.zip
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
parents:
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12 * Unzip it
7838137cbc7f planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit 450bf3326f301c344103272b0d761e8625ce0c44-dirty
bebatut
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13 * Move ``db_v20`` folder into ``dependency_dir/metaphlan2/2.5.0/bebatut/package_metaphlan2_2_5_0/...`` folder