Lucille Delisle
5ba85f3f9f
add the tool to the sample_tool_conf.xml
2024-01-25 16:21:22 +01:00
Matthias Bernt
181d5d2598
add test cases showing bug
2024-01-10 14:34:14 +01:00
mvdbeek
0cc9225ca0
Add file_name property on DatasetFilenameWrapper
2023-12-01 19:57:38 +01:00
mvdbeek
686ec6fac4
Merge branch 'release_23.1' into dev
2023-11-21 09:36:51 +01:00
John Chilton
edcc043b61
Make testing tool panel views a little easier.
2023-11-15 11:04:28 -05:00
John Chilton
ea0fe8053b
Merge pull request #14955 from jmchilton/default_uris_2
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Implement default locations for data and collection parameters.
2023-11-06 10:05:00 -05:00
Nicola Soranzo
1e86672f83
Allow non-optional integer/float params without `value` attribute
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Previously a tool with such an input would fail to load.
Add test tool.
2023-11-02 17:19:43 +00:00
John Chilton
dce53769bd
Implement default locations for data and collection parameters.
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Works for both files and collections. Workflow defaults override tool defaults.
TODO:
- Unit test case to ensure this only works for non-default, non-multi data parameters.
- Implement XSD once syntax is finalized.
2023-11-01 11:52:44 -04:00
guerler
bf02dc9948
Drop library_data input type
2023-10-17 10:29:26 +03:00
mvdbeek
0f2ef4dc0c
Merge branch 'release_23.1' into dev
2023-09-14 13:43:50 +02:00
mvdbeek
90c8438a83
Fix and extend extended metadata outputs to working directory tests
2023-09-12 13:07:10 +02:00
Marius van den Beek
f43f350982
Merge pull request #16668 from bernt-matthias/topic/samtools-bump
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Bump samtools converters
2023-09-10 10:17:26 +02:00
Matthias Bernt
8841408406
fix functional test
2023-09-09 13:19:47 +02:00
mvdbeek
33aab28217
Merge branch 'release_23.1' into dev
2023-09-08 14:43:01 +02:00
Matthias Bernt
2117385d13
fix framework test
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by allowing lines_diff
2023-09-08 13:16:52 +02:00
M Bernt and Nicola Soranzo
3199134aa8
Apply suggestions from code review
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Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com >
2023-09-07 22:02:15 +02:00
Matthias Bernt
85124d8500
xsd: allow name attrbute of test collections
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already supported by the framework
fixes: https://github.com/galaxyproject/galaxy/issues/16654
2023-09-07 20:16:26 +02:00
mvdbeek
effd5e8ade
Merge branch 'release_23.1' into dev
2023-08-24 17:03:44 +02:00
mvdbeek
3af41be3eb
Merge branch 'release_23.0' into release_23.1
2023-08-24 17:03:02 +02:00
mvdbeek
90d04a017e
Always create output
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I think that's always been required, we just didn't test this ??
2023-08-24 10:44:41 +02:00
mvdbeek
7986110c9e
Extend pulsar test cases with composite_output_tests
2023-08-24 10:44:40 +02:00
mvdbeek
61f8123b68
Test files path and extra files path
2023-08-24 10:44:40 +02:00
Laila Los
c52dba0c3a
add selenium test for reordering repeat blocks
2023-08-14 10:29:45 +02:00
Matthias Bernt
13b59afa67
add framework test for profile behavior of format="input"
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stumbled over this here: https://github.com/galaxyproteomics/tools-galaxyp/pull/679
could not find a test
2023-07-30 18:49:55 +02:00
Marius van den Beek
fa64fc646d
Merge pull request #15825 from bernt-matthias/validation_metadata
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Add ability to assert metadata properties on input dataset parameters
2023-07-29 12:00:32 +02:00
davelopez
2298f42ed7
Update XSD schema docs
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- Remove checksum support for inputs for now
2023-06-28 12:31:42 +02:00
davelopez
49719e20cc
Partially revert #15510
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This solution was suboptimal as it moved around too much unnecessary data
2023-06-28 12:28:06 +02:00
Marius van den Beek
71d70a9275
Merge pull request #15483 from bernt-matthias/tests-fix
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Fixes for two framework test tools
2023-06-21 22:02:22 +02:00
Marius van den Beek
a68a453608
Merge pull request #15085 from bernt-matthias/topic/decompress-assertions
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Decompress history data for testing assertions
2023-06-21 20:05:10 +02:00
Matthias Bernt
4a28bc3525
restructure tests and add tests for explicit container resolvers
2023-06-14 15:28:43 +01:00
Matthias Bernt
9e48ceb169
containers: do not mount /tmp/
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fixes https://github.com/galaxyproject/galaxy/issues/15673
- singularity: add `--no_mount tmp` (analogous to docker's default)
- do not bind `$TMPDIR:rw,$TMP:rw,$TEMP:rw` by default
- instead (by default )provide a writable `/tmp` via
`$_GALAXY_JOB_TMP_DIR/:/tmp:rw` note that this dir is still also
available as `$_GALAXY_JOB_TMP_DIR:rw`
2023-06-14 15:28:38 +01:00
Matthias Bernt
0e059f854a
add value_json
2023-06-06 10:02:30 +02:00
Matthias Bernt
12a4464b48
finish metadata equal validator
2023-06-06 10:02:30 +02:00
John Chilton
1f56fa37d7
WIP: metadata validation.
2023-06-06 10:02:29 +02:00
Marius van den Beek
ec9f216b73
Merge pull request #15978 from mvdbeek/fix_recording_param_path
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Record input datasets and collections at full parameter path
2023-06-04 17:47:51 +02:00
mvdbeek
5e0d80bd34
Test `format_source` with conditional inputs
2023-06-01 17:50:30 +02:00
mvdbeek
c1a055ff2f
Merge branch 'release_23.0' into dev
2023-05-25 16:36:34 +02:00
mvdbeek
dca783b185
Add test tool for triggering implicit bigwig to wig converter
2023-05-24 10:54:31 +02:00
Tunc Kayikcioglu
7e8488e748
attribute value filter
2023-04-12 10:48:33 +00:00
Nicola Soranzo
c655360e4e
Merge branch 'release_23.0' into dev
2023-04-05 12:39:43 +01:00
Matthias Bernt
ab9377d6c5
add test case for https://github.com/galaxyproject/tools-iuc/issues/5163
2023-03-30 11:18:43 +02:00
Matthias Bernt
2aee136511
add unit and functional tests
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for decomress with assertions
2023-03-06 20:57:48 +01:00
davelopez
978de0113c
Infer filename from remote location URL
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When no `file` or `value` is given for test inputs or outputs.
2023-02-16 14:46:51 +01:00
davelopez
29293b8ca8
Add support for location in test outputs files
2023-02-16 14:46:51 +01:00
davelopez
9f0f124de5
Update tool tests
2023-02-16 14:46:50 +01:00
davelopez
ad9640f58a
Add functional tool test
2023-02-16 14:46:50 +01:00
Dannon Baker
5ac7306c91
Merge remote-tracking branch 'upstream/release_22.05' into release_23.0
2023-02-08 11:56:34 -05:00
mvdbeek
2d63389e72
Add test that verifies visible doesn't revert on job finish
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It isn't exactly a regression test, for that you'd have to time the test
so that we change the visible attribute while the job is finishing. I
think this test here is worth running independently, and I don't think
we have an explicit test like that.
2023-02-08 11:56:00 +01:00
M Bernt
8fba3bfbbb
Fix indentation in cheetah
2023-02-07 18:40:33 +01:00
mvdbeek
706ec29add
Cast None value to ""
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for inferred optional text parameters, for old tools.
This maintains templating behavior for exisiting tools.
2023-02-05 20:06:08 +01:00
Lucille Delisle