/tools/emboss_5/emboss_primersearch.xml

https://bitbucket.org/h_morita_dbcls/galaxy-central · XML · 32 lines · 30 code · 2 blank · 0 comment · 0 complexity · 772eac0e0d49262e2acf45d12626b2f3 MD5 · raw file

  1. <tool id="EMBOSS: primersearch81" name="primersearch" version="5.0.0">
  2. <description>Searches DNA sequences for matches with primer pairs</description>
  3. <command>primersearch -seqall $input1 -infile $input2 -outfile $out_file1 -mismatchpercent $mismatchpercent -auto</command>
  4. <inputs>
  5. <param format="fasta" name="input1" type="data">
  6. <label>Main sequences</label>
  7. </param>
  8. <param format="data" name="input2" type="data">
  9. <label>Primer file</label>
  10. </param>
  11. <param name="mismatchpercent" size="4" type="text" value="0">
  12. <label>Allowed percent mismatch</label>
  13. </param>
  14. </inputs>
  15. <outputs>
  16. <data format="primersearch" name="out_file1" />
  17. </outputs>
  18. <tests>
  19. <test>
  20. <param name="input1" value="2.fasta"/>
  21. <param name="input2" value="emboss_primersearch.fasta"/>
  22. <param name="mismatchpercent" value="0"/>
  23. <output name="out_file1" file="emboss_primersearch_out.primersearch"/>
  24. </test>
  25. </tests>
  26. <help>
  27. You can view the original documentation here_.
  28. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/primersearch.html
  29. </help>
  30. </tool>