3
+ − 1
+ − 2 <tool id="fasta_interlacer" name="FASTA interlacer" version="1.0.0">
+ − 3 <description> Join pared reads into single file </description>
+ − 4 <command interpreter="python">
+ − 5 fasta_interlacer.py -a $A -b $B -p $paired -x $single
+ − 6 </command>
+ − 7
+ − 8 <inputs>
+ − 9 <param format="fasta" type="data" name="A" label="Left-hand mates" />
+ − 10 <param format="fasta" type="data" name="B" label="Right-hand mates" />
+ − 11 </inputs>
+ − 12
+ − 13
+ − 14 <outputs>
+ − 15 <data format="fasta" name="paired" label="interlaced paired reads from datasets ${A.hid} and ${B.hid} "/>
+ − 16 <data format="fasta" name="single" label="reads without available pair reads from datasets ${A.hid} and ${B.hid}"/>
+ − 17 </outputs>
+ − 18
+ − 19 <help>
+ − 20 **What it does**
+ − 21 This tools joins paired end FASTA reads from separate files, one with the left mates and one with the right mates, into a single files.
+ − 22 Last character in identifiers is used to distinguish pairs.
+ − 23
+ − 24 **Note !!!**
+ − 25 This tools is to be used as more efficient replacement of FASTQ interlacer. Galaxy built-in FASTQ interlacer allows different ordering
+ − 26 of sequences in both files but this flexibility comes with high memory requirements when large files are used. FASTA interlacer is simple but order of magnitude
+ − 27 faster tools which can be used on files where reads are in the same order.
+ − 28
+ − 29
+ − 30 </help>
+ − 31
+ − 32
+ − 33 </tool>
