mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-10-24 12:13:33 +08:00
Nicola Soranzo
3180b63166
Generate intermediate rst file instead of html Move generation to doc/Makefile Use pandoc to generate table of contents and fragment ids. Remove nested inline markup (not supported by reStructuredText) Fix https and other links.
139 lines
2.5 KiB
Plaintext
139 lines
2.5 KiB
Plaintext
.hg*
|
|
# Downloaded and locally built eggs
|
|
eggs
|
|
scripts/scramble/build
|
|
scripts/scramble/lib
|
|
scripts/scramble/archives
|
|
|
|
# Python virtualenv
|
|
.venv
|
|
|
|
# Database stuff
|
|
database/beaker_sessions
|
|
database/citations
|
|
database/community_files
|
|
database/compiled_templates
|
|
database/files
|
|
database/jobs_directory
|
|
database/job_working_directory
|
|
database/pbs
|
|
database/tmp
|
|
database/*.sqlite
|
|
database/openid_consumer_cache
|
|
database/dependencies
|
|
|
|
# Python bytecode
|
|
*.pyc
|
|
|
|
# Galaxy Runtime Files
|
|
*.lock
|
|
*.log
|
|
*.pid
|
|
|
|
# Tool Shed Runtime Files
|
|
tool_shed_webapp.lock
|
|
tool_shed_webapp.log
|
|
tool_shed_webapp.pid
|
|
hgweb.config*
|
|
lib/tool_shed/scripts/bootstrap_tool_shed/user_info.xml
|
|
|
|
# Reports Runtime Files
|
|
reports_webapp.lock
|
|
reports_webapp.log
|
|
reports_webapp.pid
|
|
|
|
# Jupyter Runtime Files
|
|
.ipynb_checkpoints
|
|
|
|
# Config files
|
|
universe_wsgi.ini
|
|
reports_wsgi.ini
|
|
reports.ini
|
|
tool_shed_wsgi.ini
|
|
|
|
# Config files.
|
|
datatypes_conf.xml
|
|
tool_conf.xml
|
|
external_service_types_conf.xml
|
|
migrated_tools_conf.xml
|
|
shed_tool_conf.xml
|
|
tool_data_table_conf.xml
|
|
tool_sheds_conf.xml
|
|
integrated_tool_panel.xml
|
|
openid_conf.xml
|
|
shed_tool_data_table_conf.xml
|
|
job_conf.xml
|
|
data_manager_conf.xml
|
|
shed_data_manager_conf.xml
|
|
object_store_conf.xml
|
|
job_metrics_conf.xml
|
|
workflow_schedulers_conf.xml
|
|
config/*
|
|
config/plugins/interactive_environments/**/*.ini
|
|
!config/plugins
|
|
static/welcome.html.*
|
|
static/welcome.html
|
|
|
|
# Tool data.
|
|
tool-data/annotation_profiler_options.xml
|
|
tool-data/annotation_profiler_valid_builds.txt
|
|
tool-data/gatk_annotations.txt
|
|
tool-data/gd.restriction_enzymes.txt
|
|
tool-data/gd.species.txt
|
|
tool-data/shared/igv/igv_build_sites.txt
|
|
tool-data/shared/rviewer/rviewer_build_sites.txt
|
|
tool-data/shared/ncbi/builds.txt
|
|
tool-data/shared/ucsc/builds.txt
|
|
tool-data/shared/ucsc/manual_builds.txt
|
|
tool-data/shared/ensembl/builds.txt
|
|
tool-data/shared/ucsc/publicbuilds.txt
|
|
tool-data/shared/ucsc/ucsc_build_sites.txt
|
|
tool-data/*.loc
|
|
tool-data/genome/*
|
|
tool-data/*.sample
|
|
tool-data/testtoolshed.g2.bx.psu.edu/
|
|
tool-data/toolshed.g2.bx.psu.edu/
|
|
tool-data/**/*.fa
|
|
|
|
# Test output
|
|
test-data-cache
|
|
run_framework_tests.html
|
|
run_functional_tests.html
|
|
run_toolshed_tests.html
|
|
run_api_tests.html
|
|
test/tool_shed/tmp/*
|
|
.coverage
|
|
htmlcov
|
|
run_unit_tests.html
|
|
test/unit/**.log
|
|
.tox
|
|
|
|
# Project files
|
|
*.kpf
|
|
|
|
# Chrom len files
|
|
*.len
|
|
|
|
# Jars
|
|
tool-data/shared/jars/
|
|
|
|
# CSS build artifacts.
|
|
sprite-*.less
|
|
|
|
# JS, Local node_modules, and bower_components directories
|
|
static/scripts/bundled
|
|
node_modules
|
|
bower_components
|
|
|
|
# Documentation build files.
|
|
doc/build
|
|
doc/schema.md
|
|
doc/source/dev/schema.rst
|
|
|
|
# Misc
|
|
*.orig
|
|
.DS_Store
|
|
*.rej
|
|
*~
|
|
.idea/
|