Mercurial > repos > peterjc > seq_primer_clip
diff tools/primers/seq_primer_clip.xml @ 1:8c02a91a8680 draft
Uploaded v0.0.9, modifies tests to cope with current Tool Shed limitation.
author | peterjc |
---|---|
date | Tue, 30 Apr 2013 11:04:43 -0400 |
parents | 945053d79e60 |
children |
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--- a/tools/primers/seq_primer_clip.xml Mon Apr 29 06:11:00 2013 -0400 +++ b/tools/primers/seq_primer_clip.xml Tue Apr 30 11:04:43 2013 -0400 @@ -1,4 +1,4 @@ -<tool id="seq_primer_clip" name="Primer clip sequences" version="0.0.8"> +<tool id="seq_primer_clip" name="Primer clip sequences" version="0.0.9"> <description>Trim off 5' or 3' primers</description> <version_command interpreter="python">seq_primer_clip.py --version</version_command> <command interpreter="python"> @@ -39,58 +39,58 @@ </outputs> <tests> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30.fasta" ftype="fasta" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30.fasta" ftype="fasta" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Forward" /> <param name="mm" value="2" /> <param name="keep_negatives" value="false" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_fclip.fasta" ftype="fasta" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_fclip.fasta" ftype="fasta" /> </test> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30.fastqsanger" ftype="fastqsanger" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30.fastqsanger" ftype="fastqsanger" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Forward" /> <param name="mm" value="2" /> <param name="keep_negatives" value="false" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_fclip.fastqsanger" ftype="fastqsanger" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_fclip.fastqsanger" ftype="fastqsanger" /> </test> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30.sff" ftype="sff" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30.sff" ftype="sff" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Forward" /> <param name="mm" value="2" /> <param name="keep_negatives" value="false" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_fclip.sff" ftype="sff" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_fclip.sff" ftype="sff" /> </test> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30_fclip.fasta" ftype="fasta" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30_fclip.fasta" ftype="fasta" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Reverse" /> <param name="mm" value="2" /> <param name="keep_negatives" value="true" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_frclip.fasta" ftype="fasta" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_frclip.fasta" ftype="fasta" /> </test> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30_fclip.fastqsanger" ftype="fastqsanger" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30_fclip.fastqsanger" ftype="fastqsanger" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Reverse" /> <param name="mm" value="2" /> <param name="keep_negatives" value="true" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_frclip.fastqsanger" ftype="fastqsanger" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_frclip.fastqsanger" ftype="fastqsanger" /> </test> <test> - <param name="input_file" value="primers/MID4_GLZRM4E04_rnd30_fclip.sff" ftype="sff" /> - <param name="primer_fasta" value="primers/dop_primers.fasta" /> + <param name="input_file" value="MID4_GLZRM4E04_rnd30_fclip.sff" ftype="sff" /> + <param name="primer_fasta" value="dop_primers.fasta" /> <param name="primer_type" value="Reverse" /> <param name="mm" value="2" /> <param name="keep_negatives" value="true" /> <param name="min_len" value="35" /> - <output name="output_file" file="primers/MID4_GLZRM4E04_rnd30_frclip.sff" ftype="sff" /> + <output name="output_file" file="MID4_GLZRM4E04_rnd30_frclip.sff" ftype="sff" /> </test> </tests> <requirements>