comparison spades.xml @ 4:35cb17bd8bf9 draft

planemo upload commit ba4e93c036a072d6aac883bc1aba55e26256498c

3:6dff6ed33cd7

<tool id="spades" name="spades" version="1.3.2">
  <description>SPAdes genome assembler for regular and single-cell projects</description>
  <requirements>
    <requirement type="package" version="3.8.0">spades</requirement>
  </requirements>
  <command interpreter="perl">spades.pl 
    $out_contigs 
    $out_contig_stats 
    $out_scaffolds 

    $sc
    $onlyassembler
    $careful
    -t \${GALAXY_SLOTS:-16}

    #if str($kmer_choice.auto_kmer_choice) == 'False':
    -k "$kmer_choice.kmers"    
    #else

    #end if

  <help>
**What it does**

SPAdes – St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies. See http://bioinf.spbau.ru/en/spades for more details on SPAdes.

This wrapper runs SPAdes 3.8, collects the output, and throws away all the temporary files. It also produces a tab file with contig names, length and coverage. 

**License**

SPAdes is developed by and copyrighted to Saint-Petersburg Academic University, and is released under GPLv2.

4:35cb17bd8bf9

<tool id="spades" name="spades" version="1.4">
  <description>SPAdes genome assembler for regular and single-cell projects</description>
  <requirements>
    <requirement type="package" version="3.9.0">spades</requirement>
  </requirements>
  <command interpreter="perl">spades.pl 
    $out_contigs 
    $out_contig_stats 
    $out_scaffolds 

    $sc
    $onlyassembler
    $careful
    -t \${GALAXY_SLOTS:-16}

    #if not $kmer_choice.auto_kmer_choice:
    -k "$kmer_choice.kmers"    
    #else

    #end if

  <help>
**What it does**

SPAdes – St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies. See http://bioinf.spbau.ru/en/spades for more details on SPAdes.

This wrapper runs SPAdes 3.9, collects the output, and throws away all the temporary files. It also produces a tab file with contig names, length and coverage. 

**License**

SPAdes is developed by and copyrighted to Saint-Petersburg Academic University, and is released under GPLv2.