galaxy

mirror of https://github.com/galaxyproject/galaxy.git synced 2026-09-24 16:30:27 +08:00

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T

John Chilton c2b091d207 Tests demonstrating multi-data params in repeats are broken.

A test cases and a tool that can be tested directory.

2016-04-22 10:10:06 -04:00

for_workflows

Fixes to create_input_collection.xml based on comments from @nsoranzo.

2016-03-21 11:21:08 +00:00

bibtex.xml

Add github citation example.

2015-03-16 11:14:01 -04:00

boolean_conditional.xml

Fixes for boolean & select handling in test data elements.

2015-05-19 12:43:32 -04:00

catDocker.xml

Allow tools and deployers to specify optional Docker-based dependency resolution.

2014-06-07 01:45:05 -05:00

cheetah_casting.xml

Improved Cheetah type casting for int/float types.

2015-04-16 09:34:08 -04:00

cheetah_problem_syntax_error.xml

Add another cheetah syntax error example...

2015-11-18 10:45:05 +00:00

cheetah_problem_unbound_var_input.xml

Add example tools demonstrating cheetah problem (unbound variable).

2015-11-18 10:40:57 +00:00

cheetah_problem_unbound_var.xml

Add example tools demonstrating cheetah problem (unbound variable).

2015-11-18 10:40:57 +00:00

code_file.py

PEP-8 and pylint fixes.

2015-06-16 16:53:49 +01:00

code_file.xml

Add code_file example tool from Bjoern.

2014-12-15 14:37:22 -05:00

collection_creates_dynamic_list_of_pairs.xml

Add some docs to more complicated nested collection creation examples.

2015-07-31 15:13:00 +01:00

collection_creates_dynamic_nested.xml

Add some docs to more complicated nested collection creation examples.

2015-07-31 15:13:00 +01:00

collection_creates_list_2.xml

More configurable format and metadata handling for output collections.

2015-01-15 09:30:00 -05:00

collection_creates_list_of_pairs.xml

Allow tools to explicitly create nested collections with static structure.

2015-07-31 14:10:54 +01:00

collection_creates_list.xml

Allow testing element counts in tool output collections.

2016-03-17 07:39:57 +00:00

collection_creates_pair_from_type.xml

A simpler way to configure output pairs (exploiting static structure).

2015-01-15 09:30:00 -05:00

collection_creates_pair.xml

More configurable format and metadata handling for output collections.

2015-01-15 09:30:00 -05:00

collection_mixed_param.xml

Small tweaks to some functional test tools.

2014-09-03 08:43:25 -04:00

collection_nested_test.xml

Bugfix: More left/right -> forward/reverse fixes.

2014-05-27 12:52:41 -05:00

collection_optional_param.xml

Implement optional collection params.

2014-07-25 10:28:50 -05:00

collection_paired_test.xml

Small tweaks to some functional test tools.

2014-09-03 08:43:25 -04:00

collection_split_on_column.xml

Allow tools to output collections with a dynamic number of datasets.

2015-01-15 09:30:00 -05:00

collection_two_paired.xml

Allow using data collection steps via workflow API.

2014-07-28 19:18:40 -04:00

collection_type_source.xml

Implement type_source on output collections.

2015-11-20 15:32:38 +00:00

column_multi_param.xml

Fix data column parameters pointed at multiple data parameters.

2014-09-26 10:49:43 -04:00

column_param.xml

Fix data column parameters pointed at multiple data parameters.

2014-09-26 10:49:43 -04:00

composite_output.xml

Add more sample tools for tool testing framework.

2013-11-21 19:17:12 -06:00

composite.xml

Test tool fixes.

2015-03-15 09:53:05 -04:00

create_10.xml

Add sample tool that creates 10 outputs.

2015-12-03 10:16:12 +00:00

data_manager.xml

Allow specification of multiple data manager configuration files...

2014-12-15 00:20:35 -05:00

dbkey_filter_input.xml

Add test tool demontrating filtering selections based on dbkey.

2015-07-31 11:09:45 +01:00

dbkey_filter_multi_input.xml

Allow dbkey filtering of multiple input targets.

2015-07-31 11:09:45 +01:00

detect_errors_aggressive.xml

Implement detect_errors attribute on XML.

2015-04-15 12:38:35 -04:00

disambiguate_cond.xml

Fix errors when starting "./run_tests.sh -with_framework_test_tools -api"

2015-09-25 17:51:21 +01:00

disambiguate_repeats.xml

Improve examples of newer tool functional test features.

2014-02-03 10:11:31 -06:00

empty_output.xml

Implement dataset empty input validator.

2016-02-26 10:39:04 +00:00

environment_variables.xml

Add more interesting expression to environment_variables demo tool.

2015-06-24 08:55:44 -04:00

gzipped_inputs.xml

Fix gz/zip upload of files to test framework.

2014-12-17 09:38:49 -05:00

identifier_multiple.xml

Expose improved sample tracking to tools for implicit map/reduce ops.

2015-02-02 16:29:42 -05:00

identifier_single.xml

Expose improved sample tracking to tools for implicit map/reduce ops.

2015-02-02 16:29:42 -05:00

implicit_default_conds.xml

Fixes related to implicit defaults of param values.

2013-11-21 23:37:22 -06:00

inheritance_simple.xml

Add test tool demonstrating/testing type inheritance.

2015-04-09 09:41:43 -04:00

inputs_as_json.xml

Update inputs_as_json.xml to drop version attribute.

2015-12-30 11:24:01 +00:00

job_properties.xml

Fix apparent typo for tool failure testing

2015-03-11 11:24:14 +00:00

library_data.xml

Switch default for library data parameter to multiple entries

2015-04-20 18:31:19 -04:00

maxseconds.xml

Fail maxseconds test tool if sleep is interrupted.

2015-12-05 18:13:07 +00:00

md5sum.xml

Allow testing tool outputs based on MD5 hashes.

2015-04-16 14:19:36 -04:00

metadata_bam.xml

Workaround for metadata_bam.xml failure.

2015-09-19 10:27:09 +01:00

metadata_bcf.xml

Added test for bcf index creation.

2015-04-28 13:45:33 -04:00

metadata.xml

Check ftype attribute (if defined) on test output datasets.

2014-03-14 10:12:41 -05:00

min_repeat.xml

Implement failing workflow test case.

2015-09-24 15:40:52 +01:00

multi_data_param.xml

Implement min/max for multiple data input parameters.

2015-09-21 15:51:58 +01:00

multi_data_repeat.xml

Tests demonstrating multi-data params in repeats are broken.

2016-04-22 10:10:06 -04:00

multi_output_assign_primary.xml

Implement tool test demonstrating pull request 569.

2014-11-25 22:13:17 -05:00

multi_output_configured.xml

Allow discover_datasets tag to use format attribute (instead of ext).

2015-09-21 14:24:24 +01:00

multi_output.xml

Allow tools to test runtime discovered datasets.

2014-03-29 17:11:17 -05:00

multi_page.xml

Fix multi-page tool help parsing.

2014-08-12 08:19:04 -04:00

multi_repeats.xml

Clean up tool framework test tools.

2013-11-21 21:17:04 -06:00

multi_select.xml

Merge next-stable.

2014-12-05 20:36:48 -05:00

multiple_versions_v01.xml

Allow multiple tools with the same id in ToolBox.

2014-12-31 18:21:10 -05:00

multiple_versions_v02.xml

Allow multiple tools with the same id in ToolBox.

2014-12-31 18:21:10 -05:00

output_action_change_format.xml

Fix tab problem in test tool.

2016-01-14 06:17:45 +00:00

output_auto_format.xml

Allow setting `auto_format="True" on tool output`s.

2015-04-22 12:45:11 -04:00

output_collection_filter.xml

Implement <filter> tag for output collections.

2015-07-14 10:18:24 +01:00

output_filter.xml

Add functional test tool demonstrating output filters.

2014-09-03 08:43:25 -04:00

output_format_collection.xml

Fix bugs in test and code introduced in PR #1113 .

2015-11-23 15:18:57 +00:00

output_format.xml

format_source in workflow editor is too restrictive.

2016-02-23 17:16:27 +00:00

output_order.xml

Allow outputs in tool functional tests to be specified in any order when using API interactor.

2013-11-21 19:17:13 -06:00

parallelism_optional.xml

Add tool functional test for parallelism with optional inputs.

2014-03-16 20:41:42 -05:00

parallelism.xml

Add example tool with task splitting to tool functional framework tests.

2014-01-28 14:34:26 -06:00

paths_as_file.xml

Modify pass_as_file to apply to all Multiple parameters and add test case

2016-02-04 21:11:39 +00:00

README.txt

Minor typos fixed in test/functional/tools/README.txt

2015-04-10 16:38:34 -04:00

sample_data_manager_conf.xml

Allow specification of multiple data manager configuration files...

2014-12-15 00:20:35 -05:00

sample_datatypes_conf.xml

Added test for bcf index creation.

2015-04-28 13:45:33 -04:00

samples_tool_conf.xml

Tests demonstrating multi-data params in repeats are broken.

2016-04-22 10:10:06 -04:00

section.xml

Tool testing sections.

2015-03-23 20:04:49 -04:00

simple_constructs.xml

Fixes for boolean & select handling in test data elements.

2015-05-19 12:43:32 -04:00

simple_constructs.yml

Introduce "Format 2" workflow definitions.

2015-11-18 10:50:43 +00:00

special_params.xml

Add functional test tool demonstrating special parameters.

2014-09-03 08:43:25 -04:00

strict_shell_default_off.xml

Introduce strict shell command option.

2016-02-22 09:58:43 +00:00

strict_shell.xml

Introduce strict shell command option.

2016-02-22 09:58:43 +00:00

tool_directory.xml

Expose $__tool_directory__ to tools.

2015-02-03 10:29:34 -05:00

top_level_data.xml

Test tool fixes.

2015-03-15 09:53:05 -04:00

unicode_stream.xml

Improved unicode handling stdout/stderr/command_line.

2015-11-10 12:59:22 +00:00

upload_tool_conf.xml

Rename shed_conf attribute to is_shed_conf.

2016-04-01 10:01:54 -04:00

upload.py

Add new option, tools, and data to functional test framework to test/demonstrate tool framework itself.

2013-11-21 19:17:12 -06:00

upload.xml

Add new option, tools, and data to functional test framework to test/demonstrate tool framework itself.

2013-11-21 19:17:12 -06:00

validation_default.xml

Synchronize validation of workflows between web and API controllers.

2014-09-10 11:51:10 -04:00

validation_empty_dataset.xml

Implement dataset empty input validator.

2016-02-26 10:39:04 +00:00

validation_repeat.xml

Add regression test for issue in #798 .

2015-09-25 14:29:05 +01:00

validation_sanitizer.xml

More tool functional tests for validation stuff.

2014-09-16 21:29:10 -04:00

README.txt

This directory contains tools only useful for testing and
demonstrating aspects of the tool syntax. Run the test driver script
'run_tests.sh' with the '-framework' as first argument to run through
these tests. Pass in an '-id' along with one of these tool ids to test
a single tool.

Some API tests use these tools to test various features of the API,
tool, and workflow subsystems. Pass the argument
'-with_framework_test_tools' to 'run_tests.sh' in addition to '-api'
to ensure these tools get loaded during the testing process.

Finally, to play around with these tools interactively - simply
replace the 'galaxy.ini' option 'tool_config_file' with:

tool_config_file = test/functional/tools/samples_tool_conf.xml