Mercurial > repos > devteam > sam_to_bam
comparison sam_to_bam.xml @ 10:cf1ffd88f895 draft
"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 |
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| 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"> |