Mercurial > repos > konradpaszkiewicz > preppereadsforveletfasta

annotate prepare_pe_reads_for_velvet.sh @ 0:4d237a31970b default tip

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Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author konradpaszkiewicz
date Tue, 07 Jun 2011 17:42:21 -0400
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4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
parents:
diff changeset
1 #!/bin/bash
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
parents:
diff changeset
2 ##<fastq1 in> <fastq1 out> <fastq2 in> <fastq2 out> <singletons reads out> <pe reads output>
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
parents:
diff changeset
3 ## $5 and $6 are outputs
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
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diff changeset
4 perl /users/galaxy/galaxyscripts/fastq_pe_even.pl $1 $2 $3 $4 $5
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
parents:
diff changeset
5 perl /usr/local/velvet/shuffleSequences_fastq.pl $2 $4 $6
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
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diff changeset
6 rm -f $2
4d237a31970b Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
konradpaszkiewicz
parents:
diff changeset
7 rm -f $4