galaxy Package¶
app
Module¶
config
Module¶
Universe configuration builder.
-
class
galaxy.config.
Configuration
(**kwargs)[source]¶ Bases:
object
-
deprecated_options
= ('database_file',)¶
-
is_admin_user
(user)[source]¶ Determine if the provided user is listed in admin_users.
- NOTE: This is temporary, admin users will likely be specified in the
- database in the future.
-
sentry_dsn_public
¶ Sentry URL with private key removed for use in client side scripts, sentry server will need to be configured to accept events
-
-
class
galaxy.config.
ConfiguresGalaxyMixin
[source]¶ Shared code for configuring Galaxy-like app objects.
-
galaxy.config.
configure_logging
(config)[source]¶ Allow some basic logging configuration to be read from ini file.
Subpackages¶
- actions Package
- datatypes Package
assembly
Modulebinary
Modulecheckers
Modulechrominfo
Modulecoverage
Moduledata
Modulegenetics
Moduleimages
Moduleinterval
Modulemetadata
Modulengsindex
Modulequalityscore
Moduleregistry
Modulesequence
Modulesniff
Moduletabular
Moduletracks
Modulexml
Module- Subpackages
- converters Package
bed_to_genetrack_converter
Modulebed_to_gff_converter
Modulebedgraph_to_array_tree_converter
Modulebgzip
Modulefasta_to_len
Modulefasta_to_tabular_converter
Modulefastq_to_fqtoc
Modulefastqsolexa_to_fasta_converter
Modulefastqsolexa_to_qual_converter
Modulegff_to_bed_converter
Modulegff_to_interval_index_converter
Moduleinterval_to_bed_converter
Moduleinterval_to_bedstrict_converter
Moduleinterval_to_coverage
Moduleinterval_to_fli
Moduleinterval_to_interval_index_converter
Moduleinterval_to_summary_tree_converter
Moduleinterval_to_tabix_converter
Modulelped_to_fped_converter
Modulelped_to_pbed_converter
Modulemaf_to_fasta_converter
Modulemaf_to_interval_converter
Modulepbed_ldreduced_converter
Modulepbed_to_lped_converter
Modulepicard_interval_list_to_bed6_converter
Modulesam_or_bam_to_summary_tree_converter
Modulesam_to_bam
Modulevcf_to_interval_index_converter
Modulevcf_to_summary_tree_converter
Modulevcf_to_vcf_bgzip
Modulewiggle_to_array_tree_converter
Modulewiggle_to_simple_converter
Module
- display_applications Package
- util Package
- converters Package
- eggs Package
- exceptions Package
- external_services Package
- forms Package
- jobs Package
- model Package
- managers Package
- objectstore Package
- openid Package
- quota Package
- sample_tracking Package
- security Package
- tags Package
- tool_shed Package
- tools Package
- util Package
util
Packagealiaspickler
Modulebunch
Moduledebugging
Moduleexpressions
Modulehash_util
Moduleheartbeat
Moduleinflection
Modulejson
Modulelrucache
Modulememdump
Modulenone_like
Moduleodict
Modulesanitize_html
Moduleshed_util
Moduleshed_util_common
Modulestreamball
Moduletemplate
Moduletopsort
Module- Subpackages
- visualization Package
- web Package
- webapps Package
webapps
Package- Subpackages
- community Package
- galaxy Package
buildapp
Module- Subpackages
- Galaxy API Documentation
- Background
- Quickstart
- API Design Guidelines
- API Controllers
annotations
Moduleauthenticate
Moduleconfiguration
Moduledataset_collections
Moduledatasets
Moduledatatypes
Moduleextended_metadata
Modulefolder_contents
Modulefolders
Moduleforms
Moduleftp_files
Modulegenomes
Modulegroup_roles
Modulegroup_users
Modulegroups
Modulehistories
Modulehistory_contents
Moduleitem_tags
Modulejob_files
Modulejobs
Modulelda_datasets
Modulelibraries
Modulelibrary_contents
Modulemetrics
Modulepage_revisions
Modulepages
Moduleprovenance
Modulequotas
Modulerequest_types
Modulerequests
Moduleroles
Modulesamples
Modulesearch
Moduletool_data
Moduletool_shed_repositories
Moduletools
Moduleusers
Modulevisualizations
Moduleworkflows
Module
- controllers Package
controllers
Packageadmin
Moduleadmin_toolshed
Moduleasync
Modulecloudlaunch
Moduledata_admin
Moduledataset
Moduleerror
Moduleexternal_service
Moduleexternal_services
Moduleforms
Modulehistory
Modulelibrary
Modulelibrary_admin
Modulelibrary_common
Modulemobile
Modulepage
Modulerequest_type
Modulerequests
Modulerequests_admin
Modulerequests_common
Moduleroot
Moduletag
Moduletool_runner
Moduleucsc_proxy
Moduleuser
Modulevisualization
Moduleworkflow
Module
- Galaxy API Documentation
- reports Package
- workflow Package