bowtie2 Perl wrapper does not quote argument values

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#325 bowtie2 Perl wrapper does not quote argument values

Milestone: v0.9.0

Status: closed

Owner: Val

Labels: None

Priority: 5

Updated: 2015-02-17

Created: 2014-12-09

Creator: Lance Parsons

Private: No

bowtie2 wrapper does not quote argument values. This means, for example, if a sample name with a space is passed as --rg "SM:Sample A" it is parsed by the Perl wrapper properly, but passed to bowtie2-align as --rg SM:Sample A, which causes problems with the parsing.

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Val - 2015-01-15

Hi Lance,

Thank you for pointing this to us. We will fix the wrapper for the next release cycle.

thanks,
Val

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Val - 2015-02-17

Added the fix.

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Val - 2015-02-17

status: open --> closed

assigned_to: Val
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bowtie2 Perl wrapper does not quote argument values

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#325 bowtie2 Perl wrapper does not quote argument values

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