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comparison bwa-mem.xml @ 23:3fe632431b68 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bwa commit 777181bd04849dab271ee2cc95e45c182947d308"
author iuc
date Tue, 19 May 2020 11:29:11 -0400
parents 8d2a528a9513
children 64f11cf59c6e
comparison
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22:01ac0a5fedc3 23:3fe632431b68
104 #else: 104 #else:
105 '${reference_fasta_filename}' 105 '${reference_fasta_filename}'
106 '${fastq_input.fastq_input1}' 106 '${fastq_input.fastq_input1}'
107 #end if 107 #end if
108 108
109 | samtools sort -@\${GALAXY_SLOTS:-2} -O bam -o '$bam_output' 109 | samtools sort -@\${GALAXY_SLOTS:-2} -T "\${TMPDIR:-.}" -O bam -o '$bam_output'
110 ]]></command> 110 ]]></command>
111 111
112 <inputs> 112 <inputs>
113 <expand macro="reference_source_conditional" /> 113 <expand macro="reference_source_conditional" />
114 <conditional name="fastq_input"> 114 <conditional name="fastq_input">