Mercurial > repos > devteam > emboss_5
diff emboss_iep.xml @ 11:0e2484b6829b draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit b583bbeb8fc90cd4b1e987a56982e7cf4aed1a68
| author | iuc |
|---|---|
| date | Mon, 30 Jan 2017 13:27:40 -0500 |
| parents | 9b98d3d903c6 |
| children | d5c3794bd246 |
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--- a/emboss_iep.xml Fri Aug 12 19:17:10 2016 -0400 +++ b/emboss_iep.xml Mon Jan 30 13:27:40 2017 -0500 @@ -1,25 +1,21 @@ -<tool id="EMBOSS: iep45" name="iep" version="5.0.0"> - <description>Calculates the isoelectric point of a protein</description> - <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements> - <command>iep -sequence $input1 -outfile $out_file1 -step $step -amino $amino -graph png -termini $termini -auto</command> - <inputs> - <param format="data" name="input1" type="data"> - <label>Sequences</label> - </param> - <param name="step" type="text" value=".5"> - <label>Step value for pH</label> - </param> - <param name="amino" type="text" value="1"> - <label>Number of N-termini</label> - </param> - <param name="termini" type="select"> - <label>Include charge at N and C terminus</label> - <option value="yes">Yes</option> - <option value="no">No</option> - </param> - </inputs> - <outputs> - <data format="iep" name="out_file1" /> +<tool id="EMBOSS: iep45" name="iep" version="5.0.0.1"> + <description>Calculates the isoelectric point of a protein</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command>iep -sequence '$input1' -outfile '$out_file1' -step $step -amino $amino -graph png -termini $termini -auto</command> + <inputs> + <param name="input1" type="data" format="data" label="Sequences" /> + <param name="step" type="float" value="0.5" label="Step value for pH" /> + <param name="amino" type="integer" value="1" label="Number of N-termini" /> + <param name="termini" type="select" label="Include charge at N and C terminus"> + <option value="yes">Yes</option> + <option value="no">No</option> + </param> + </inputs> + <outputs> + <data name="out_file1" format="iep" /> </outputs> <tests> <test> @@ -29,18 +25,11 @@ <param name="termini" value="yes"/> <output name="out_file1" file="emboss_iep_out.iep"/> </test> - </tests> + </tests> <help> You can view the original documentation here_. - - .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/iep.html - ------- - -**Citation** -For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ - -If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ + .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/iep.html </help> -</tool> \ No newline at end of file + <expand macro="citations" /> +</tool>