Repository revision
17:250745643de2

Repository 'apollo_feat_from_gff3'
hg clone https://toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3

GFF3 to Apollo Annotations tool metadata
Miscellaneous
feat_from_gff3
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.13+galaxy0
4.2.13+galaxy0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.13+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.13
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.5
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.3
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.2.1
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.1
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/4.0.0
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/1.0
toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/0.9
feat_from_gff3
Requirements (dependencies defined in the <requirements> tag set)
name version type
apollo 4.2.13 package
Additional information about this tool
if [ -z "\$ARROW_GLOBAL_CONFIG_PATH" ]; then
        echo "__default: local" > '.auth.yml' &&
        echo "local:" >> '.auth.yml' &&
        echo "    url: \"\$GALAXY_WEBAPOLLO_URL\"" >> '.auth.yml' &&
        echo "    username: \"\$GALAXY_WEBAPOLLO_USER\"" >> '.auth.yml' &&
        echo "    password: \"\$GALAXY_WEBAPOLLO_PASSWORD\"" >> '.auth.yml' &&

        export ARROW_GLOBAL_CONFIG_PATH='.auth.yml'
      ; fi &&
  

python '$__tool_directory__/create_features_from_gff3.py'


#if $org_source.source_select == "auto_json":
    --org_json '${org_source.org_file}'
#elif $org_source.source_select == "select":
    --org_id '${org_source.org_select}'
#else:
    --org_raw '${org_source.org_raw}'
#end if

  

'$__user_email__'
'$gff3_data'
--source '${__app__.config.galaxy_infrastructure_url}/history/view/${__app__.security.encode_id($gff3_data.history_id)}'
$use_name
$disable_cds_recalculation

> '$output'
None
False
Functional tests
name inputs outputs required files
Test-1 org_source|org_raw: test_organism
org_source|source_select: direct
gff3_data: merlin.gff
name: value
merlin.gff
value