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annotate tool_dependencies.xml @ 39:fab099dde911 draft default tip

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VariantFiltration should not have -nt option since it does not implemnt TreeReducible
author Jim Johnson <jj@umn.edu>
date Tue, 05 Mar 2013 11:15:13 -0600
parents 0ca0c3270e32
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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7533db8dfb5b Update tool_dependencies to GATK v 2.3
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3 <package name="gatk" version="2.3">
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6ef8eb568700 Move GATK tool_dependency to a repository dependency, use 2 env vars: GATK2_NUM_THREADS and GATK2_NUM_CPU_THREADS for site threading values
Jim Johnson <jj@umn.edu>
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4 <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="gatk_lite_2_3_9" owner="jjohnson" changeset_revision="10c2fe2d3b39" />
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5 </package>
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6 <package name="samtools" version="0.1.18">
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0ca0c3270e32 Temporarily use my own copy of samtools - correct name
Jim Johnson <jj@umn.edu>
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7 <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="samtools_0_1_18" owner="jjohnson" changeset_revision="e9da9a990458" />
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8 </package>
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9 </tool_dependency>