Galaxy |

Stacks2: sstacks tool metadata

Miscellaneous

Name: Stacks2: sstacks

Description: Match samples to the catalog

Id: stacks2_sstacks

Guid: toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.55+galaxy0

Version: 2.55+galaxy0

Version command string: process_radtags -h |& grep process_radtags | head -n 1 | cut -d" " -f 2

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.55+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.55+galaxy0 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.53+galaxy0

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.4+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_sstacks/stacks2_sstacks/2.4+galaxy0

stacks2_sstacks

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

Requirements:

name

version

type

stacks

2.55

package

python

3.7

package

findutils

4.6.0

package

Functional tests

name

inputs

outputs

required files

Test-1

input_stacks: list collection
input_cat: list collection
popmap: denovo_map/popmap_cstacks.tsv
add_log: True

name: value

ustacks/PopA_01.alleles.tsv
ustacks/PopA_01.snps.tsv
ustacks/PopA_01.tags.tsv
ustacks/PopA_02.alleles.tsv
ustacks/PopA_02.snps.tsv
ustacks/PopA_02.tags.tsv
cstacks/catalog.alleles.tsv
cstacks/catalog.snps.tsv
cstacks/catalog.tags.tsv
denovo_map/popmap_cstacks.tsv
value

Test-2

input_stacks: list collection
input_cat: list collection
add_log: True

name: value

Test-3

input_stacks: list collection
input_cat: list collection
popmap: denovo_map/popmap_cstacks.tsv
x: False
gapped|use_gapped: yes
add_log: False