/tools/emboss_5/emboss_wordcount.xml

https://bitbucket.org/h_morita_dbcls/galaxy-central · XML · 34 lines · 29 code · 5 blank · 0 comment · 0 complexity · 0710733e4b4eeb8cb67fc3ea3749fb20 MD5 · raw file

  1. <tool id="EMBOSS: wordcount109" name="wordcount" version="5.0.0">
  2. <description>Counts words of a specified size in a DNA sequence</description>
  3. <command>wordcount -sequence $input1 -outfile $out_file1 -wordsize "$wordsize" -auto</command>
  4. <inputs>
  5. <param format="fasta" name="input1" type="data">
  6. <label>Sequence</label>
  7. </param>
  8. <param name="wordsize" size="5" type="text" value="4">
  9. <label>Word size</label>
  10. </param>
  11. </inputs>
  12. <outputs>
  13. <data format="wordcount" name="out_file1" />
  14. </outputs>
  15. <tests>
  16. <test>
  17. <param name="input1" value="2.fasta"/>
  18. <param name="wordsize" value="4"/>
  19. <output name="out_file1" file="emboss_wordcount_out.wordcount"/>
  20. </test>
  21. </tests>
  22. <help>
  23. .. class:: warningmark
  24. The input dataset needs to be sequences.
  25. -----
  26. You can view the original documentation here_.
  27. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/wordcount.html
  28. </help>
  29. </tool>