| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.8.3+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.8.0+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.7.0+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.6.1+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.5.3+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/raven/raven/1.2.2+galaxy1 |
| raven |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| raven-assembler | 1.8.3 | package |
| Additional information about this tool |
#if $input_reads.is_of_type("fasta")
ln -s '$input_reads' ./input.fa &&
#set input = "input.fa"
#elif $input_reads.is_of_type("fasta.gz")
ln -s '$input_reads' ./input.fa.gz &&
#set input = "input.fa.gz"
#elif $input_reads.is_of_type("fastq")
ln -s '$input_reads' ./input.fq &&
#set input = "input.fq"
#elif $input_reads.is_of_type("fastq.gz")
ln -s '$input_reads' ./input.fq.gz &&
#set input = "input.fq.gz"
#end if
raven
--kmer-len '$kmer_len'
--window-len '$window_len'
--frequency '$frequency'
--polishing-rounds '$polishing_rounds'
--match '$match'
--mismatch '$mismatch'
--gap '$gap'
--kMaxNumOverlaps '$kMaxNumOverlaps'
--identity $identity
--min-unitig-size $min_unitig_size
--use-micromizers $use_micromizers
$graphical_fragment_assembly
--disable-checkpoints
-t \${GALAXY_SLOTS:-4}
'$input'
> '$out_fasta'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_reads: ERA476754.fastq.gz |
name: value name: value |
ERA476754.fastq.gz value |