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Check out the blog post for a migration guide and overview of the changes!
Breaking changes
Ruff now enables a much larger set of rules by default (413, up from 59). See the blog post for more details and the new Default Rules page for a full listing of the enabled rules.
Ruff can now format Python code blocks in Markdown files and will do this by default. See the documentation for more details.
Ruff now supports ruff: ignore comments at the ends of lines, like noqa comments, or on the line preceding a diagnostic. For example, these both suppress an unused-import (F401) diagnostic:
Fixes are now shown in check and format --check output:
❯ ruff format --check .unformatted: File would be reformatted --> try.md:1:1 |1 | ```python - import math2 + import math3 | ``` |1 file would be reformatted
This example also shows off the Markdown formatting.
format --check now supports the same output formats as the linter, including the github and gitlab outputs for rendering annotations in CI:
❯ ruff format --check --output-format github .::error title=ruff (unformatted),file=try.md,line=2,col=8,endLine=2,endColumn=10::try.md:2:8: unformatted: File would be reformatted
See the CLI help or documentation for the full list of supported formats.
The filename, location, end_location, fix.edits[].location, and fix.edits[].end_location fields in the JSON output format may now be null rather than defaulting to the empty string and row 1, column 1, respectively.
Check out the blog post for a migration
guide and overview of the changes!
Breaking changes
Ruff now enables a much larger set of rules by default (413, up from 59). See the blog post for
more details and the new Default Rules page for a
full listing of the enabled rules.
Ruff can now format Python code blocks in Markdown files and will do this by default. See the
documentation for more details.
Ruff now supports ruff: ignore comments at the ends of lines, like noqa comments, or on the line preceding a diagnostic. For example, these both suppress an unused-import (F401) diagnostic:
Fixes are now shown in check and format --check output:
❯ ruff format --check .unformatted: File would be reformatted --> try.md:1:1 |1 | ```python - import math2 + import math3 | ``` |1 file would be reformatted
This example also shows off the Markdown formatting.
format --check now supports the same output formats as the linter, including the github and
gitlab outputs for rendering annotations in CI:
❯ ruff format --check --output-format github .::error title=ruff (unformatted),file=try.md,line=2,col=8,endLine=2,endColumn=10::try.md:2:8: unformatted: File would be reformatted
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CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/any-type-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/any-type-compat.cwl
output:
output1:
- hello
- world
output2:
- foo
- bar
output3: hello
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#any_outputSource_compatibility
doc: Testing Any type compatibility in outputSource
tags:
- required
- workflow
line: '195'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/bool-empty-inputbinding-job.json
output:
args: []
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/bool-empty-inputbinding.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#booleanflags_cl_noinputbinding
doc: Test that boolean flags do not appear on command line if inputBinding is
empty and not null
tags:
- required
- command_line_tool
line: '1708'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty-array-job.json
output:
args: []
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty-array-input.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#cl_empty_array_input
doc: Test that empty array input does not add anything to command line
tags:
- required
- command_line_tool
line: '1748'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/nested-array-job.yml
output:
echo:
checksum: sha1$3f786850e387550fdab836ed7e6dc881de23001b
location: echo.txt
class: File
size: 2
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/nested-array.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#cl_gen_arrayofarrays
doc: Test command line generation of array-of-arrays
tags:
- required
- command_line_tool
line: '1242'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-int.json
output:
t1: 7
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_any_input_with_integer_provided
doc: Test Any parameter with integer input to a tool
tags:
- command_line_tool
- inline_javascript
line: '2086'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-array-one-empty-file.json
output:
output_file:
checksum: sha1$dad5a8472b87f6c5ef87d8fc6ef1458defc57250
basename: output.txt
location: Any
class: File
size: 11
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/size-expression-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_file_size_property_with_empty_file
doc: Test use of size in expressions for an empty file
tags:
- command_line_tool
- inline_javascript
line: '2234'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-array-few-files.json
output:
output_file:
checksum: sha1$9def39730e8012bd09bf8387648982728501737d
basename: output.txt
location: Any
class: File
size: 31
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/size-expression-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_file_size_property_with_multi_file
doc: Test use of size in expressions for a few files
tags:
- command_line_tool
- inline_javascript
line: '2248'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-array-one-empty-file.json
output:
output_file:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
basename: output.txt
location: Any
class: File
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-or-files.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_optional_union_input_file_or_files_with_array_of_one_file_provided
doc: Test input union type or File or File array to a tool with one file in
array specified.
tags:
- command_line_tool
- inline_javascript
line: '2030'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-array-few-files.json
output:
output_file:
checksum: sha1$6d1723861ad5a1260f1c3c07c93076c5a215f646
basename: output.txt
location: Any
class: File
size: 1114
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-or-files.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_optional_union_input_file_or_files_with_many_files_provided
doc: Test input union type or File or File array to a tool with a few files in
array specified.
tags:
- command_line_tool
- inline_javascript
line: '2044'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-null.json
output:
output_file:
checksum: sha1$503458abf7614be3fb26d85ff5d8f3e17aa0a552
basename: output.txt
location: Any
class: File
size: 10
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-or-files.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_optional_union_input_file_or_files_with_nothing_provided
doc: Test input union type or File or File array to a tool with null specified.
tags:
- command_line_tool
- inline_javascript
line: '2072'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/job-input-one-file.json
output:
output_file:
checksum: sha1$327fc7aedf4f6b69a42a7c8b808dc5a7aff61376
basename: output.txt
location: Any
class: File
size: 1111
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-or-files.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#clt_optional_union_input_file_or_files_with_single_file_provided
doc: Test input union type or File or File array to a tool with one file
specified.
tags:
- command_line_tool
- inline_javascript
line: '2058'
CWL test execution failed.
Returned non-zero but it should be zero
Test: output: {}
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/default_path_job.yml
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/default_path.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#default_path_notfound_warning
doc: Test warning instead of error when default path is not found
tags:
- required
- command_line_tool
line: '1411'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir-job.yml
output:
outlist:
size: 20
location: output.txt
checksum: sha1$13cda8661796ae241da3a18668fb552161a72592
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir2.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#directory_input_docker
doc: Test directory input in Docker
tags:
- required
- command_line_tool
line: '1114'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir-job.yml
output:
outlist:
size: 20
location: output.txt
checksum: sha1$13cda8661796ae241da3a18668fb552161a72592
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#directory_input_param_ref
doc: Test directory input with parameter reference
tags:
- required
- command_line_tool
line: '1101'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4-job.yml
output:
outlist:
checksum: sha1$13cda8661796ae241da3a18668fb552161a72592
size: 20
location: output.txt
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#directory_secondaryfiles
doc: Test directories in secondaryFiles
tags:
- required
- command_line_tool
line: '1151'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
thing:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
location: thing
class: File
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/docker-output-dir.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dockeroutputdir
doc: Test dockerOutputDirectory
tags:
- docker
- command_line_tool
line: '1386'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir-job.yml
output:
outlist:
checksum: sha1$13cda8661796ae241da3a18668fb552161a72592
size: 20
location: output.txt
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir5.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_initial_workdir
doc: Test dynamic initial work dir
tags:
- initial_work_dir
- command_line_tool
line: '1165'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-dir-job.yaml
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-dir.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_resreq_filesizes
doc: Test dynamic resource reqs referencing the size of Files inside a Directory
output:
output:
location: cores.txt
size: 2
class: File
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
tags:
- resource
- command_line_tool
line: '1779'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-job.yaml
doc: Test simple workflow with a dynamic resource requirement
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-workflow.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_resreq_wf
output:
cores:
location: output
size: 2
class: File
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
tags:
- resource
- workflow
line: '1735'
CWL test execution failed.
Returned non-zero but it should be zero
Test: tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-workflow-tooldefault.cwl
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
cores:
location: output
size: 2
class: File
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_resreq_wf_optional_file_default
doc: Within a workflow, test accessing the size attribute of an optional input
File as part of a CommandLineTool's ResourceRequirement calculation. The
CommandLineTool input has a default value (a local file) and the workflow nor
the workflow step does not provide any value for this input.
tags:
- workflow
- resource
line: '2320'
CWL test execution failed.
Returned non-zero but it should be zero
Test: tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-workflow-stepdefault.cwl
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
cores:
location: output
size: 2
class: File
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_resreq_wf_optional_file_step_default
doc: Within a workflow, test accessing the size attribute of an optional input
File as part of a CommandLineTool's ResourceRequirement calculation. The
workflow step provides a default value (a local file) for this input and the
workflow itself does not provide any value for this input.
tags:
- workflow
- resource
line: '2336'
CWL test execution failed.
Returned non-zero but it should be zero
Test: tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dynresreq-workflow-inputdefault.cwl
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#dynamic_resreq_wf_optional_file_wf_default
output:
cores:
location: output
size: 2
class: File
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
doc: Within a workflow, test accessing the size attribute of an optional input
File as part of a CommandLineTool's ResourceRequirement calculation. The
workflow itelf provides a default value (a local file) for this input.
tags:
- workflow
- resource
line: '2352'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines10-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#embedded_subworkflow
doc: Test embedded subworkflow
tags:
- subworkflow
- workflow
line: '1299'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output: {}
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/envvar.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#env_home_tmpdir
doc: Test $HOME and $TMPDIR are set correctly
tags:
- required
- command_line_tool
line: '1254'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output: {}
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/envvar2.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#env_home_tmpdir_docker
doc: Test $HOME and $TMPDIR are set correctly in Docker
tags:
- required
- command_line_tool
line: '1261'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
results:
basename: results
class: File
checksum: sha1$7d5ca8c0c03e883c56c4eb1ef6f6bb9bccad4d86
size: 8
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/envvar3.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#env_home_tmpdir_docker_no_return_code
doc: Test $HOME and $TMPDIR are set correctly in Docker without using return
code
tags:
- required
- command_line_tool
line: '1811'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
args: []
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stage-unprovided-file.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expr_reference_self_noinput
doc: Test that expression engine does not fail to evaluate reference to self
with unprovided input
tags:
- required
- command_line_tool
line: '1718'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression1-tool.cwl
output:
output: 1
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_any
doc: Test default usage of Any in expressions.
tags:
- inline_javascript
- expression_tool
line: '149'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression1-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression1-tool.cwl
output:
output: 1
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_any_null
doc: Test explicitly passing null to Any type inputs with default values.
tags:
- inline_javascript
- expression_tool
line: '157'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression2-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression2-tool.cwl
output:
output: 2
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_any_nullstring_nodefaultany
doc: Testing the string 'null' does not trip up an Any without a default value.
tags:
- inline_javascript
- expression_tool
line: '187'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression2-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-expression1-tool.cwl
output:
output: 2
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_any_string
doc: Testing the string 'null' does not trip up an Any with a default value.
tags:
- inline_javascript
- expression_tool
line: '165'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc2-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_outputEval
doc: Test outputEval to transform output
tags:
- inline_javascript
- command_line_tool
line: '224'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/parseInt-job.json
output:
output: 42
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/parseInt-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_parseint
doc: Test ExpressionTool with Javascript engine
tags:
- inline_javascript
- expression_tool
line: '217'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-int-job.json
output:
o:
- 0
- 1
- 2
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-int.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expression_tool_int_array_output
doc: Test output arrays in a tool (with ints).
tags:
- expression_tool
- inline_javascript
line: '2184'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
out:
checksum: sha1$7448d8798a4380162d4b56f9b452e2f6f9e24e7a
location: whatever.txt
class: File
size: 2
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/js-expr-req-wf.cwl#wf
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#expressionlib_tool_wf_override
doc: Test that expressionLib requirement of individual tool step overrides
expressionLib of workflow.
tags:
- inline_javascript
- workflow
line: '1268'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
lit:
location: a_file
class: File
checksum: sha1$fea23663b9c8ed71968f86415b5ec091bb111448
size: 19
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/file-literal-ex.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#exprtool_file_literal
doc: Test file literal output created by ExpressionTool
tags:
- inline_javascript
- expression_tool
line: '1353'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
lit:
location: a_file
class: File
checksum: sha1$a49c4cc1531107fe689606f89c9391db4f8efe15
size: 21
secondaryFiles:
- class: File
location: b_file
checksum: sha1$5ff34169047fdff65569f0624c6395799e213826
size: 21
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/file-literal-ex1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#exprtool_literal_secondary_file
doc: Test file literal with a secondary file output created by ExpressionTool
tags:
- inline_javascript
- expression_tool
line: '1365'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/file-literal.yml
output:
output_file:
class: File
checksum: sha1$d0e04ff6c413c7d57f9a0ca0a33cd3ab52e2dd9c
location: output.txt
size: 18
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat3-nodocker.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#fileliteral_input_docker
doc: Test file literal as input without Docker
tags:
- required
- command_line_tool
line: '1648'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/docker-array-secondaryfiles-job.json
output:
bai_list:
checksum: sha1$081fc0e57d6efa5f75eeb237aab1d04031132be6
location: fai.list
class: File
size: 386
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/docker-array-secondaryfiles.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#filesarray_secondaryfiles
doc: Test required, optional and null secondaryFiles on array of files.
tags:
- docker
- inline_javascript
- command_line_tool
line: '1306'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/formattest-job.json
output:
output:
location: output.txt
format: http://edamontology.org/format_2330
size: 1111
class: File
checksum: sha1$97fe1b50b4582cebc7d853796ebd62e3e163aa3f
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/formattest.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#format_checking
doc: Test simple format checking.
tags:
- required
- command_line_tool
line: '818'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/formattest2-job.json
output:
output:
location: output.txt
format: http://edamontology.org/format_1929
size: 12010
class: File
checksum: sha1$971d88faeda85a796752ecf752b7e2e34f1337ce
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/formattest2.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#format_checking_subclass
doc: Test format checking against ontology using subclassOf.
tags:
- required
- command_line_tool
line: '832'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
out:
class: File
checksum: sha1$b3ec4ed1749c207e52b3a6d08c59f31d83bff519
location: out
size: 15
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/imported-hint.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#hints_import
doc: Test hints with $import
tags:
- required
- command_line_tool
line: '1399'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/arguments-job.yml
output:
classfile:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
location: Hello.class
class: File
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/linkfile.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#initial_workdir_expr
doc: Test expression in InitialWorkDir listing
tags:
- initial_work_dir
- command_line_tool
line: '1205'
CWL test execution failed.
Returned non-zero but it should be zero
Test: doc: Test InitialWorkDirRequirement with a nested directory structure from
another step
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
ya_empty:
class: File
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
location: ya
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/iwdr_with_nested_dirs.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#initialworkdir_nesteddir
tags:
- initial_work_dir
- workflow
line: '1696'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output: {}
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/initialwork-path.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#initialworkpath_output
doc: Test that file path in $(inputs) for initialworkdir is in $(outdir).
tags:
- initial_work_dir
- command_line_tool
line: '1528'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir-job.yml
output:
outlist:
size: 20
location: output.txt
checksum: sha1$13cda8661796ae241da3a18668fb552161a72592
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir6.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#input_dir_inputbinding
doc: Test directory input with inputBinding
tags:
- shell_command
- command_line_tool
line: '1229'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/file-literal.yml
output:
output_file:
class: File
checksum: sha1$d0e04ff6c413c7d57f9a0ca0a33cd3ab52e2dd9c
location: output.txt
size: 18
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat3-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#input_file_literal
doc: Test file literal as input
tags:
- required
- command_line_tool
line: '1193'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4-subdir-1-job.yml
output:
outlist:
checksum: sha1$9d9bc8f5252d39274b5dfbac64216c6e888f5dfc
size: 14
location: output.txt
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#job_input_secondary_subdirs
doc: Test specifying secondaryFiles in subdirectories of the job input document.
tags:
- required
- command_line_tool
line: '1867'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4-subdir-2-job.yml
output:
outlist:
checksum: sha1$9d9bc8f5252d39274b5dfbac64216c6e888f5dfc
size: 14
location: output.txt
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/dir4.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#job_input_subdir_primary_and_secondary_subdirs
doc: Test specifying secondaryFiles in same subdirectory of the job input as the
primary input file.
tags:
- required
- command_line_tool
line: '1881'
CWL test execution failed.
Returned non-zero but it should be zero
Test: output: {}
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/metadata.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#metadata
doc: Test metadata
tags:
- required
- command_line_tool
line: '811'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/basename-fields-job.yml
output:
extFile:
checksum: sha1$301a72c82a835e1737caf30f94d0eec210c4d9f1
class: File
size: 5
location: Any
path: Any
rootFile:
checksum: sha1$b4a583c391e234cf210e1d576f68f674c8ad7ecd
class: File
size: 10
location: Any
path: Any
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/basename-fields-test.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#nameroot_nameext_generated
doc: Test that nameroot and nameext are generated from basename at execution
time by the runner
tags:
- step_input
- workflow
line: '1509'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
b:
checksum: sha1$c4cfd130e7578714e3eef91c1d6d90e0e0b9db3e
location: whale.xtx
class: File
size: 21
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/nameroot.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#nameroot_nameext_stdout_expr
doc: Test nameroot/nameext expression in arguments, stdout
tags:
- required
- command_line_tool
line: '1217'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
wc_output:
class: File
checksum: sha1$3596ea087bfdaf52380eae441077572ed289d657
size: 3
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#nested_workflow_noexp
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines8-wf-noET.cwl
doc: Test nested workflow, without ExpressionTool
tags:
- workflow
- subworkflow
line: '2298'
CWL test execution failed.
Returned non-zero but it should be zero
Test: output:
out: "t\n"
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-defined.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#null_missing_params
doc: Test that missing parameters are null (not undefined) in expression
tags:
- inline_javascript
- command_line_tool
line: '1481'
CWL test execution failed.
Returned non-zero but it should be zero
Test: tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/optional-input-scatter.cwl
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-job1.json
output:
out:
- foo one
- foo two
- foo three
- foo four
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#optional_input_scatter
doc: "Test optional step input with single scatter parameter\n"
tags:
- scatter
- workflow
line: '1974'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/import_schema-def_job.yml
output:
output_bam:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
basename: a.bam
class: File
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/import_schema-def_packed.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#packed_import_schema
doc: SchemaDefRequirement with $import, and packed
tags:
- schema_def
- workflow
line: '1855'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
t1:
bar:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t10: 1
t11: 1
t12:
t13: -zab1
t14: -zab1
t15: -zab1
t16: -zab1
t17: zab1 zab1
t18: zab1 zab1
t19: zab1 zab1
t2:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t20: zab1 zab1
t21: 2 2
t22: true true
t23: true true
t24: null null
t25: b
t26: b b
t3:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t4:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t5: zab1
t6: zab1
t7: zab1
t8: zab1
t9: 2
t27:
t28: 3
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/params2.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#param_evaluation_expr
doc: Test parameter evaluation, with support for JS expressions
tags:
- inline_javascript
- command_line_tool
line: '732'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
t1:
bar:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t10: 1
t11: 1
t12:
t13: -zab1
t14: -zab1
t15: -zab1
t16: -zab1
t17: zab1 zab1
t18: zab1 zab1
t19: zab1 zab1
t2:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t20: zab1 zab1
t21: 2 2
t22: true true
t23: true true
t24: null null
t25: b
t26: b b
t3:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t4:
b az: 2
b"az:
b'az: 1
baz: zab1
buz:
- a
- b
- c
t5: zab1
t6: zab1
t7: zab1
t8: zab1
t9: 2
t27:
t28: 3
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/params.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#param_evaluation_noexpr
doc: Test parameter evaluation, no support for JS expressions
tags:
- required
- command_line_tool
line: '654'
CWL test execution failed.
Returned non-zero but it should be zero
Test: output:
out: "f\n"
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/null-defined.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#param_notnull_expr
doc: Test that provided parameter is not null in expression
tags:
- inline_javascript
- command_line_tool
line: '1489'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/steplevel-resreq.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#resreq_step_overrides_wf
doc: Test that ResourceRequirement on a step level redefines requirement on the
workflow level
output:
out:
location: cores.txt
size: 2
class: File
checksum: sha1$e5fa44f2b31c1fb553b6021e7360d07d5d91ff5e
tags:
- resource
- workflow
line: '1757'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
result:
- class: File
checksum: sha1$4bb9bb2748a4380f12c039a9c2268115b816a6de
- class: File
checksum: sha1$cf42ecac010c90a72257a573a5ce7efb7d6f0e08
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-defaults.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#scatter_all_input_defaults
doc: Test workflow scatter with single scatter parameter and two default inputs
tags:
- scatter
- workflow
line: '1831'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines3-job.json
output:
count_output:
- 16
- 1
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines18-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#scatter_embedded_subworkflow
doc: Test simple scatter over an embedded subworkflow
tags:
- workflow
- inline_javascript
line: '1895'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines4-job.json
output:
count_output:
- 16
- 1
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines14-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#scatter_multi_input_embedded_subworkflow
doc: Test simple multiple input scatter over an embedded subworkflow
tags:
- workflow
- scatter
- subworkflow
- multiple_input
- inline_javascript
line: '1903'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/record-secondaryFiles-job.yml
output: {}
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/record-sd-secondaryFiles.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#secondary_files_in_named_records
doc: Test secondaryFiles on SchemaDefRequirement record fields
tags:
- command_line_tool
- schema_def
line: '2521'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
stderr_file:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
location: Any
class: File
size: 0
stdout_file:
checksum: sha1$1555252d52d4ec3262538a4426a83a99cfff4402
location: Any
class: File
size: 9
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/shellchar.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#shelldir_notinterpreted
doc: Test that shell directives are not interpreted.
tags:
- required
- command_line_tool
line: '1553'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
stderr_file:
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
location: Any
class: File
size: 0
stdout_file:
checksum: sha1$1555252d52d4ec3262538a4426a83a99cfff4402
location: Any
class: File
size: 9
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/shellchar2.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#shelldir_quoted
doc: Test that shell directives are quoted.
tags:
- shell_command
- command_line_tool
line: '1573'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stderr.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stderr_redirect
doc: Test command line with stderr redirection
output:
output_file:
class: File
checksum: sha1$f1d2d2f924e986ac86fdf7b36c94bcdf32beec15
size: 4
location: error.txt
tags:
- required
- command_line_tool
line: '101'
CWL test execution failed.
Returned non-zero but it should be zero
Test: output:
output_file:
class: File
size: 4
checksum: sha1$f1d2d2f924e986ac86fdf7b36c94bcdf32beec15
location: std.err
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stderr-mediumcut.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stderr_redirect_mediumcut
doc: Test command line with stderr redirection, named brief syntax
tags:
- required
- command_line_tool
line: '125'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stderr-shortcut.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stderr_redirect_shortcut
doc: Test command line with stderr redirection, brief syntax
output:
output_file:
class: File
checksum: sha1$f1d2d2f924e986ac86fdf7b36c94bcdf32beec15
size: 4
location: Any
tags:
- required
- command_line_tool
line: '113'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
output:
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
class: File
location: output
size: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stdinout_redirect
doc: Test command execution in with stdin and stdout redirection
tags:
- required
- command_line_tool
line: '205'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
output_txt:
class: File
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
location: output.txt
size: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat4-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stdinout_redirect_docker
doc: Test command execution in Docker with stdin and stdout redirection
tags:
- required
- command_line_tool
line: '137'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
output_file:
class: File
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
location: output.txt
size: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat3-tool.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stdout_redirect_docker
doc: Test command execution in Docker with stdout redirection
tags:
- docker
- command_line_tool
line: '65'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
output_file:
class: File
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
location: cat-out
size: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat3-tool-mediumcut.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stdout_redirect_mediumcut_docker
doc: Test command execution in Docker with mediumcut stdout redirection
tags:
- docker
- command_line_tool
line: '89'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat3-tool-shortcut.cwl
output:
output_file:
class: File
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
location: Any
size: 13
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#stdout_redirect_shortcut_docker
doc: Test command execution in Docker with shortcut stdout redirection
tags:
- docker
- command_line_tool
line: '77'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
wc_output:
class: File
checksum: sha1$3596ea087bfdaf52380eae441077572ed289d657
size: 3
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines9-wf-noET.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#step_input_default_value_noexp
doc: Test default value on step input parameter, no ExpressionTool
tags:
- workflow
- required
line: '2276'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
count_output: 1
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#step_input_default_value_overriden_2nd_step
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines11-extra-step-wf.cwl
doc: Test default value on step input parameter overridden by provided source.
With passthrough first step
tags:
- workflow
- inline_javascript
line: '2367'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
wc_output:
class: File
checksum: sha1$e5fa44f2b31c1fb553b6021e7360d07d5d91ff5e
size: 2
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#step_input_default_value_overriden_2nd_step_noexp
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines11-extra-step-wf-noET.cwl
doc: Test default value on step input parameter overridden by provided source.
With passthrough first step and no ExpressionTool
tags:
- workflow
- required
line: '2376'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/cat-job.json
output:
wc_output:
class: File
checksum: sha1$e5fa44f2b31c1fb553b6021e7360d07d5d91ff5e
size: 2
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines11-wf-noET.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#step_input_default_value_overriden_noexp
doc: Test default value on step input parameter overridden by provided source,
no ExpressionTool
tags:
- workflow
- required
line: '2287'
CWL test execution failed.
Returned non-zero but it should be zero
Test: tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/exit-success.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#success_codes
doc: Test successCodes
job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output: {}
tags:
- required
- command_line_tool
line: '1728'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/array-of-strings-job.yml
output:
args:
- replacementValue
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/valueFrom-constant.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#valuefrom_constant_overrides_inputs
doc: Test valueFrom with constant value overriding provided array inputs
tags:
- required
- command_line_tool
line: '1770'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/revsort-job.json
output:
output:
class: File
checksum: sha1$b9214658cc453331b62c2282b772a5c063dbd284
location: output.txt
size: 1111
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/revsort-packed.cwl#main
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_compound_doc
doc: Test compound workflow document
tags:
- required
- workflow
line: '1497'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/sum-job.json
output:
result: 12
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/sum-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_multiplesources_multipletypes
doc: Test step input with multiple sources with multiple types
tags:
- step_input
- inline_javascript
- multiple_input
- workflow
line: '1545'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/sum-job.json
output:
result:
class: File
checksum: sha1$ad552e6dc057d1d825bf49df79d6b98eba846ebe
size: 3
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_multiplesources_multipletypes_noexp
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/sum-wf-noET.cwl
doc: Test step input with multiple sources with multiple types, without
ExpressionTool
tags:
- workflow
- step_input
- inline_javascript
- multiple_input
line: '2309'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-valuefrom-job3.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-valuefrom-wf6.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_scatter_oneparam_valueFrom
doc: Test valueFrom eval on scattered input parameter
output:
out_message:
- checksum: sha1$98030575f6fc40e5021be5a8803a6bef94aee11f
location: Any
class: File
size: 16
- checksum: sha1$edcacd50778d98ae113015406b3195c165059dd8
location: Any
class: File
size: 16
tags:
- scatter
- step_input
- workflow
line: '1066'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-valuefrom-job1.json
output:
out:
- foo one one
- foo one two
- foo one three
- foo one four
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-valuefrom-inputs-wf1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_scatter_oneparam_valuefrom_inputs
doc: Test workflow scatter with single scatter parameter and two valueFrom using
$inputs (first and current el)
tags:
- scatter
- step_input
- workflow
line: '1823'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines6-job.json
output:
count_output: 34
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines12-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_scatter_twopar_oneinput_flattenedmerge
doc: Test single step workflow with Scatter step and two data links connected to
same input, flattened merge behavior. Workflow inputs are set as list
tags:
- multiple_input
- inline_javascript
- workflow
line: '1535'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/bwa-mem-job.json
output:
out1:
- foo 1
- foo 2
- foo 3
- foo 4
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/scatter-valuefrom-default.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_scatter_valuefrom_default
doc: Test workflow scatter with single scatter parameter, a valueFrom in the
WorkflowStep and a default value inside the step
tags:
- scatter
- step_input
- workflow
line: '1847'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/pass-unconnected.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_step_connect_undeclared_param
doc: Test that it is not an error to connect a parameter to a workflow step,
even if the parameter doesn't appear in the `run` process inputs.
output:
out: "hello inp1\n"
tags:
- required
- workflow
line: '1792'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/conflict-job.json
output:
fileout:
location: out.txt
checksum: sha1$a2d8d6e7b28295dc9977dc3bdb652ddd480995f0
class: File
size: 25
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/conflict-wf.cwl#collision
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_two_inputfiles_namecollision
doc: Test workflow two input files with same name.
tags:
- required
- workflow
line: '1087'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines2-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_wc_expressiontool
doc: Test two step workflow with inline tools
tags:
- inline_javascript
- workflow
line: '238'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines1-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#wf_wc_parseInt
doc: Test two step workflow with imported tools
tags:
- inline_javascript
- workflow
line: '231'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-file.json
output:
t1: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-wf-1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_any_input_with_file_provided
doc: Test Any parameter with file input to a workflow
tags:
- workflow
- inline_javascript
line: '2135'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-array.json
output:
t1:
- 1
- moocow
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-wf-1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_any_input_with_mixed_array_provided
doc: Test Any parameter with array input to a workflow
tags:
- workflow
- inline_javascript
line: '2142'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-record.json
output:
t1:
moo: 1
cow: 5
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-wf-1.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_any_input_with_record_provided
doc: Test Any parameter with record input to a tool
tags:
- workflow
- inline_javascript
line: '2149'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines15-wf.cwl
doc: Test twice nested subworkflow
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_embedded_subworkflow_embedded_subsubworkflow
tags:
- workflow
- subworkflow
- inline_javascript
line: '1911'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines17-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_embedded_subworkflow_with_subsubworkflow_and_tool
doc: Test subworkflow of mixed depth with tool after
tags:
- workflow
- subworkflow
- inline_javascript
line: '1925'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
count_output: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/count-lines16-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_embedded_subworkflow_with_tool_and_subsubworkflow
doc: Test subworkflow of mixed depth with tool first
tags:
- workflow
- subworkflow
- inline_javascript
line: '1918'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-file-job.json
output:
o:
- basename: moo
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
class: File
location: Any
size: 0
- basename: cow
checksum: sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709
class: File
location: Any
size: 0
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-file-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_file_array_output
doc: Test output arrays in a workflow (with Files).
tags:
- workflow
- expression_tool
- inline_javascript
line: '2198'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/default_path_job.yml
output:
o:
class: File
basename: output
location: Any
checksum: sha1$47a013e660d408619d894b20806b1d5086aab03b
size: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_file_input_default_specified
doc: Test File input with default specified to workflow
tags:
- workflow
line: '2017'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
o:
class: File
basename: output
size: 1111
location: Any
checksum: sha1$327fc7aedf4f6b69a42a7c8b808dc5a7aff61376
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-file-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_file_input_default_unspecified
doc: Test File input with default unspecified to workflow
tags:
- workflow
line: '2004'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int.json
output:
o: 250
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input
doc: Test integer workflow input and outputs
tags:
- workflow
- inline_javascript
- expression_tool
line: '1953'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
o: 13
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-default-tool-and-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input_default_and_tool_integer_input_default
doc: Test default integer tool and workflow inputs (unspecified)
tags:
- workflow
- inline_javascript
- expression_tool
line: '1997'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int.json
output:
o: 250
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input_default_specified
doc: Test default integer workflow inputs (specified)
tags:
- workflow
- inline_javascript
- expression_tool
line: '1983'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
o: 128
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input_default_unspecified
doc: Test default integer workflow inputs (unspecified)
tags:
- workflow
- inline_javascript
- expression_tool
line: '1990'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int.json
output:
o: 250
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-optional-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input_optional_specified
doc: Test optional integer workflow inputs (specified)
tags:
- workflow
- inline_javascript
- expression_tool
line: '1960'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
o: 16
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-int-optional-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_integer_input_optional_unspecified
doc: Test optional integer workflow inputs (unspecified)
tags:
- workflow
- inline_javascript
- expression_tool
line: '1967'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/record-output-job.json
output:
orec:
ofoo:
location: foo
size: 1111
class: File
checksum: sha1$327fc7aedf4f6b69a42a7c8b808dc5a7aff61376
obar:
location: bar
size: 12010
class: File
checksum: sha1$aeb3d11bdf536511649129f4077d5cda6a324118
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/record-output-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_records_inputs_and_outputs
doc: Test record type inputs to and outputs from workflows.
tags:
- workflow
- shell_command
line: '1932'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
o: the default value
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-union-input-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_union_default_input_unspecified
doc: Test union type input to workflow with default unspecified
tags:
- workflow
- inline_javascript
- expression_tool
line: '2156'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-any-file.json
output:
o: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/io-union-input-default-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflow_union_default_input_with_file_provided
doc: Test union type input to workflow with default specified as file
tags:
- workflow
- inline_javascript
- expression_tool
line: '2163'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-int-job.json
output:
o: 12
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/output-arrays-int-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflowstep_int_array_input_output
doc: Test output arrays in a workflow (with ints).
tags:
- workflow
- expression_tool
- inline_javascript
line: '2191'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/wc-job.json
output:
val1: "whale.txt\n"
val2: "step1_out\n"
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/step-valuefrom5-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflowstep_valuefrom_file_basename
doc: Test valueFrom on workflow step using basename.
tags:
- workflow
- step_input
line: '2177'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/empty.json
output:
val: "moocow\n"
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/step-valuefrom4-wf.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#workflowstep_valuefrom_string
doc: Test valueFrom on workflow step from literal (string).
tags:
- workflow
- step_input
line: '2170'
CWL test execution failed.
Returned non-zero but it should be zero
Test: job:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stagefile-job.yml
output:
outfile:
checksum: sha1$b769c7b2e316edd4b5eb2d24799b2c1f9d8c86e6
size: 1111
location: bob.txt
class: File
tool:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/tests/stagefile.cwl
id:
file:.../streamflow-postgresql/streamflow-postgresql/cwl-v1.3-2063e9095f421f2a2ce12abaf196b2ba06ca5aae/conformance_tests.cwltest.yaml#writable_stagedfiles
doc: Test writable staged files.
tags:
- initial_work_dir
- command_line_tool
line: '1179'
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dependenciesPull requests that update a dependency filepython:uvPull requests that update python:uv code
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Bumps ruff from 0.15.22 to 0.16.0.
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Sourced from ruff's releases.
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Sourced from ruff's changelog.
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Commits
a2635fdBump 0.16.0 (#27136)3433449[ty] Reuse full call diagnostics for implicit setter calls (#27115)2240070Reflectruff: ignoreand--add-ignorestabilization in documentation (#27...17ef711Stabilize--add-ignore(#27125)ef912bbAdd newly stabilized rules to defaults (#27055)b30f040Stabilize new default rules (#27035)bcd70c5Exclude Markdown files fromformat-devruns (#27052)87e51e2Fixformat --checkspans for syntax errors (#27045)afe2723[flake8-gettext] Stabilize qualified-name and built-in binding resolution (...a9702d8[flake8-bandit] Stabilize string literal binding resolution (S310) (#26944)Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting
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