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Repository revision

Revision: 2:ba62b6bab010

Repository 'ctk'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/yqiancolumbia/ctk

Stitch Gene blocks tool metadata

Miscellaneous

Name: Stitch Gene blocks

Description: given a set of coding exon intervals

Id: GeneBed_Maf_Fasta2

Guid: toolshed.g2.bx.psu.edu/repos/yqiancolumbia/ctk/GeneBed_Maf_Fasta2/1.0.1

Version: 1.0.1

Version command string: None

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/yqiancolumbia/ctk/GeneBed_Maf_Fasta2/1.0.1 (this tool)

GeneBed_Maf_Fasta2

Requirements (dependencies defined in the <requirements> tag set)

No requirements defined

Functional tests

name

inputs

outputs

required files

Test-1

overwrite_with_gaps: True
input1: 8.bed
maf_source_type|maf_identifier: 8_WAY_MULTIZ_hg17
maf_source_type|species: ['canFam1', 'hg17', 'mm5', 'panTro1', 'rn3']
maf_source_type|maf_source: cached

out_file1: gene_bed_maf_to_fasta_out.fasta

8.bed
gene_bed_maf_to_fasta_out.fasta

Test-2

overwrite_with_gaps: True
input1: 8.bed
maf_source_type|maf_file: 4.maf
maf_source_type|species: ['hg17', 'panTro1']
maf_source_type|maf_source: user

out_file1: gene_bed_maf_to_fasta_user_out.fasta

8.bed
4.maf
gene_bed_maf_to_fasta_user_out.fasta