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comparison sam_to_bam.xml @ 10:cf1ffd88f895 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/sam_to_bam commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
author iuc
date Thu, 17 Oct 2019 02:17:48 -0400
parents f7a0d41036c7
children 1e69848b596f
comparison
equal deleted inserted replaced
9:b77f7b516b17 10:cf1ffd88f895
24 24
25 samtools sort 25 samtools sort
26 -O bam 26 -O bam
27 -@ \${GALAXY_SLOTS:-1} 27 -@ \${GALAXY_SLOTS:-1}
28 -o '$output1' 28 -o '$output1'
29 -T temp 29 -T "\${TMPDIR:-.}"
30 ]]></command> 30 ]]></command>
31 31
32 <inputs> 32 <inputs>
33 <conditional name="source"> 33 <conditional name="source">
34 <param label="Choose the source for the reference genome" name="index_source" type="select"> 34 <param label="Choose the source for the reference genome" name="index_source" type="select">
40 <validator type="unspecified_build" /> 40 <validator type="unspecified_build" />
41 <validator message="Sequences are not currently available for the specified build." metadata_column="1" metadata_name="dbkey" table_name="fasta_indexes" type="dataset_metadata_in_data_table" /> 41 <validator message="Sequences are not currently available for the specified build." metadata_column="1" metadata_name="dbkey" table_name="fasta_indexes" type="dataset_metadata_in_data_table" />
42 </param> 42 </param>
43 <param name="index" type="select" label="Using reference genome"> 43 <param name="index" type="select" label="Using reference genome">
44 <options from_data_table="fasta_indexes"> 44 <options from_data_table="fasta_indexes">
45 <filter column="1" key="dbkey" ref="input1" type="data_meta" /> 45 <filter column="dbkey" key="dbkey" ref="input1" type="data_meta" />
46 <validator message="No reference genome is available for the build associated with the selected input dataset" type="no_options" /> 46 <validator message="No reference genome is available for the build associated with the selected input dataset" type="no_options" />
47 </options> 47 </options>
48 </param> 48 </param>
49 </when> 49 </when>
50 <when value="history"> 50 <when value="history">