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comparison macros.xml @ 1:390fc279c3e5 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_view commit c7bb87a32997810fd9f28572fc5af628c8c4ffa3
author iuc
date Tue, 25 Sep 2018 04:21:03 -0400
parents 5b44ef788111
children 80d8ca44f8da
comparison
equal deleted inserted replaced
0:5b44ef788111 1:390fc279c3e5
65 ]]></token> 65 ]]></token>
66 <token name="@ADDTHREADS@"><![CDATA[ 66 <token name="@ADDTHREADS@"><![CDATA[
67 ##compute the number of ADDITIONAL threads to be used by samtools (-@) 67 ##compute the number of ADDITIONAL threads to be used by samtools (-@)
68 addthreads=\${GALAXY_SLOTS:-1} && (( addthreads-- )) && 68 addthreads=\${GALAXY_SLOTS:-1} && (( addthreads-- )) &&
69 ]]></token> 69 ]]></token>
70
71 <token name="@ADDMEMORY@"><![CDATA[
72 ##compute the number of memory available to samtools sort (-m)
73 ##use only 75% of available: https://github.com/samtools/samtools/issues/831
74 addmemory=\${GALAXY_MEMORY_MB_PER_SLOT:-768} &&
75 ((addmemory=addmemory*75/100)) &&
76 ]]></token>
70 <xml name="flag_options"> 77 <xml name="flag_options">
71 <option value="1">read is paired</option> 78 <option value="1">read is paired</option>
72 <option value="2">read is mapped in a proper pair</option> 79 <option value="2">read is mapped in a proper pair</option>
73 <option value="4">read is unmapped</option> 80 <option value="4">read is unmapped</option>
74 <option value="8">mate is unmapped</option> 81 <option value="8">mate is unmapped</option>