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tille pushed a change to branch upstream
in repository python-ruffus.
from ac493a8 Imported Upstream version 2.6.2+dfsg
new 65b49ab Imported Upstream version 2.6.3+dfsg
The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
PKG-INFO | 2 +-
README.rst | 127 ++++
doc/_build/latex/ruffus.pdf | Bin 4688129 -> 4690982
bytes
doc/history.rst | 22 +-
doc/implementation_notes.rst | 27 -
doc/static_data/ruffus.pdf | Bin 4688129 -> 4690982
bytes
doc/todo.rst | 50 +-
doc/tutorials/new_syntax_worked_example_code.rst | 186 ++++--
ruffus/drmaa_wrapper.py | 87 ++-
ruffus/file_name_parameters.py | 35 +-
ruffus/proxy_logger.py | 45 --
ruffus/ruffus_exceptions.py | 4 +
ruffus/ruffus_utility.py | 64 +-
ruffus/ruffus_version.py | 2 +-
ruffus/task.py | 642 ++++++++++++---------
.../auto_generated_pipeline_examples/parallel.py | 228 --------
.../auto_generated_pipeline_examples/simple.py | 253 --------
.../auto_generated_pipeline_examples/simpler.py | 269 ---------
ruffus/test/complicated_example.py | 6 +-
.../create_test_script_from_dependency_tree.py | 3 +-
ruffus/test/manual_test_ctrl_c_exceptions.py | 2 +-
ruffus/test/play_with_colours.py | 3 +-
ruffus/test/run_all_unit_tests.cmd | 93 +++
ruffus/test/run_all_unit_tests3.cmd | 93 +++
ruffus/test/simpler.py | 234 --------
ruffus/test/simpler_with_shared_logging.py | 9 +-
ruffus/test/slow_process_for_testing.py | 22 +
ruffus/test/test_N_x_M_and_collate.py | 27 +-
ruffus/test/test_active_if.py | 23 +-
ruffus/test/test_branching_dependencies.py | 22 +-
ruffus/test/test_cmdline.py | 20 +-
ruffus/test/test_collate.py | 17 +-
ruffus/test/test_combinatorics.py | 160 +++--
ruffus/test/test_drmaa_wrapper_run_job_locally.py | 86 +++
ruffus/test/test_empty_files_decorator.py | 14 +-
ruffus/test/test_exceptions.py | 9 +-
ruffus/test/test_file_name_parameters.py | 510 ++++++++--------
ruffus/test/test_files_decorator.py | 28 +-
ruffus/test/test_filesre_combine.py | 21 +-
ruffus/test/test_filesre_split_and_combine.py | 21 +-
ruffus/test/test_follows_mkdir.py | 32 +-
ruffus/test/test_graphviz.py | 18 +-
..._inputs_with_multiple_args_raising_exception.py | 31 +-
ruffus/test/test_job_completion_checksums.py | 86 ++-
ruffus/test/test_job_history_with_exceptions.py | 57 +-
ruffus/test/test_mkdir.py | 43 +-
ruffus/test/test_newstyle_combinatorics.py | 125 ++--
ruffus/test/test_newstyle_proxy.py | 39 +-
ruffus/test/test_newstyle_regex_error_messages.py | 37 +-
ruffus/test/test_pausing.py | 18 +-
ruffus/test/test_pipeline_printout_graph.py | 19 +-
ruffus/test/test_posttask_merge.py | 21 +-
ruffus/test/test_proxy_logger.py | 78 +++
ruffus/test/test_regex_error_messages.py | 39 +-
ruffus/test/test_ruffus_utility.py | 20 +-
.../test_ruffus_utility_parse_task_arguments.py | 51 +-
ruffus/test/test_runtime_data.py | 35 +-
ruffus/test/test_softlink_uptodate.py | 24 +-
ruffus/test/test_split_and_combine.py | 13 +-
ruffus/test/test_split_regex_and_collate.py | 25 +-
ruffus/test/test_split_subdivide_checkpointing.py | 24 +-
ruffus/test/test_subpipeline.py | 33 +-
..._subpipeline.py => test_subpipeline_cmdline.py} | 134 +++--
ruffus/test/test_suffix_output_dir.py | 204 ++++---
ruffus/test/test_task_file_dependencies.py | 16 +-
ruffus/test/test_task_misc.py | 7 +-
ruffus/test/test_transform_add_inputs.py | 8 +-
ruffus/test/test_transform_formatter.py | 147 +++++
ruffus/test/test_transform_inputs.py | 19 +-
ruffus/test/test_transform_with_no_re_matches.py | 33 +-
ruffus/test/test_tutorial7.py | 44 +-
ruffus/test/test_unicode_filenames.py | 59 +-
ruffus/test/test_verbosity.py | 55 +-
ruffus/test/test_with_logger.py | 214 +++++++
74 files changed, 2665 insertions(+), 2609 deletions(-)
create mode 100644 README.rst
delete mode 100644 ruffus/test/auto_generated_pipeline_examples/parallel.py
delete mode 100644 ruffus/test/auto_generated_pipeline_examples/simple.py
delete mode 100644 ruffus/test/auto_generated_pipeline_examples/simpler.py
create mode 100755 ruffus/test/run_all_unit_tests.cmd
create mode 100755 ruffus/test/run_all_unit_tests3.cmd
delete mode 100644 ruffus/test/simpler.py
create mode 100644 ruffus/test/slow_process_for_testing.py
create mode 100755 ruffus/test/test_drmaa_wrapper_run_job_locally.py
create mode 100755 ruffus/test/test_proxy_logger.py
copy ruffus/test/{test_subpipeline.py => test_subpipeline_cmdline.py} (57%)
create mode 100755 ruffus/test/test_transform_formatter.py
create mode 100755 ruffus/test/test_with_logger.py
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