Galaxy |

NCBI BLAST+ database info tool metadata

Miscellaneous

Name: NCBI BLAST+ database info

Description: Show BLAST database information from blastdbcmd

Id: ncbi_blastdbcmd_info

Guid: toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/2.10.1+galaxy0

Version: 2.10.1+galaxy0

Version command string: blastdbcmd -version

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/2.10.1+galaxy1

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/2.10.1+galaxy0 (this tool)

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/2.9.0+galaxy0

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/2.7.1+galaxy0

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/0.3.3

toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/0.0.2

ncbi_blastdbcmd_info

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

Requirements:

name

version

type

blast

2.10.1

package

Additional information about this tool

Command:

blastdbcmd

-dbtype "$db_opts.db_type"
#if $db_opts.db_origin.db_origin_selector=="db":
  -db "${db_opts.db_origin.database.fields.path.replace(',',' ')}"
#else if $db_opts.db_origin.db_origin_selector=="histdb":
  -db '${os.path.join($db_opts.db_origin.histdb.extra_files_path, "blastdb")}'
#end if
    
-info -out "$info"

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

db_opts|db_origin|database: four_human_proteins
db_opts|db_type: prot

name: value

value

Test-2

db_opts|db_origin|database: three_human_mRNA
db_opts|db_type: nucl

name: value

value

Test-3

db_opts|db_origin|database: rhodopsin_nucs
db_opts|db_type: nucl

name: value

value

Test-4

db_opts|db_origin|database: ['three_human_mRNA', 'rhodopsin_nucs']
db_opts|db_type: nucl

name: value

value