Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.9+galaxy0 (this tool) |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.8+galaxy0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.7+galaxy0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.6+galaxy0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.5+galaxy0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.4+galaxy0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.3 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.2 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.1 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.3.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.2.6.1 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.2.6.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.2.5.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.2.3.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.2.2.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.1.5.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.1.4.0 |
toolshed.g2.bx.psu.edu/repos/gga/chado_feature_load_fasta/feature_load_fasta/2.1.1.0 |
feature_load_fasta |
Requirements (dependencies defined in the <requirements> tag set) |
name | version | type |
python-chado | 2.3.9 | package |
jq | 1.5 | package |
postgresql | 11.2 | package |
pglite | 0.1 | package |
Additional information about this tool |
#if $psql_target.method == 'pgtools' tar -xjvf '$psql_target.infile' > /dev/null && . '$__tool_directory__/prepare_psql.sh' '$psql_target.schema' #else if [ -z "\$CHAKIN_GLOBAL_CONFIG_PATH" ]; then echo "__default: local" > '.auth.yml' && echo "local:" >> '.auth.yml' && echo " dbhost: \"\$GALAXY_CHADO_DBHOST\"" >> '.auth.yml' && echo " dbname: \"\$GALAXY_CHADO_DBNAME\"" >> '.auth.yml' && echo " dbpass: \"\$GALAXY_CHADO_DBPASS\"" >> '.auth.yml' && echo " dbuser: \"\$GALAXY_CHADO_DBUSER\"" >> '.auth.yml' && echo " dbschema: \"\$GALAXY_CHADO_DBSCHEMA\"" >> '.auth.yml' && echo " dbport: \"\$GALAXY_CHADO_DBPORT\"" >> '.auth.yml' && export CHAKIN_GLOBAL_CONFIG_PATH='.auth.yml' ; fi #end if && chakin feature load_fasta '$fasta' '$organism' #if $sequence_type: --sequence_type '$sequence_type' #end if #if $analysis_id: --analysis_id '$analysis_id' #end if #if $re_name: --re_name '$re_name' #end if #if $re_uniquename: --re_uniquename '$re_uniquename' #end if $match_on_name $do_update #if $ext_db.db: --db '${ext_db.db}' #end if #if $ext_db.re_db_accession: --re_db_accession '${ext_db.re_db_accession}' #end if #if str($relationships.rel_type) != "none": --rel_type '${relationships.rel_type}' --re_parent '${relationships.rel_subject_re}' --parent_type '${relationships.rel_subject_type}' #end if | jq -S . > '$results' #if $psql_target.method == 'pgtools' && pglite stop -d ./postgresql && timeout 60 bash -c 'until pglite status -d ./postgresql | grep -F -q "no server running"; do sleep 1; done' && tar -cvjf postgresql_out.tar.bz2 postgresql > /dev/null ; ## Make sure psql is stopped even if loading script failed pglite stop -d ./postgresql || true #end if
Functional tests |