This is an automated email from the git hooks/post-receive script. tille pushed a commit to tag debian/3.9.1-1 in repository snakemake.
commit 4b3f40158a954678daeb273b173f84e698efa9ad Merge: 48f7e7d 8111782 Author: Andreas Tille <ti...@debian.org> Date: Mon Jan 9 14:12:51 2017 +0100 Merge tag 'upstream/3.9.1' Upstream version 3.9.1 .dockerignore | 8 + .gitignore | 1 + AUTHORS.rst | 0 CHANGELOG.md | 10 + Dockerfile | 7 + LICENSE.md | 18 +- bin/snakemake | 20 - bitbucket-pipelines.yml | 8 - docs/{api.rst => api_reference/snakemake.rst} | 2 + .../snakemake_utils.rst} | 2 + docs/conf.py | 9 +- docs/executable.rst | 176 + docs/getting_started/examples.rst | 301 + docs/getting_started/img/c-dag.png | Bin 0 -> 8155 bytes docs/getting_started/img/cufflinks-dag.png | Bin 0 -> 26777 bytes docs/getting_started/img/latex-dag.png | Bin 0 -> 9527 bytes docs/getting_started/installation.rst | 70 + docs/index.rst | 211 +- docs/project_info/authors.rst | 58 + docs/project_info/citations.rst | 51 + docs/project_info/contributing.rst | 205 + docs/project_info/faq.rst | 413 + docs/project_info/history.rst | 8 + docs/project_info/img/idea.png | Bin 0 -> 43456 bytes docs/project_info/license.rst | 10 + docs/project_info/more_resources.rst | 34 + docs/requirements.txt | 4 +- docs/snakefiles/configuration.rst | 111 + docs/snakefiles/deployment.rst | 81 + docs/snakefiles/modularization.rst | 99 + docs/snakefiles/remote_files.rst | 409 + docs/snakefiles/rules.rst | 695 + docs/snakefiles/utils.rst | 81 + docs/snakefiles/writing_snakefiles.rst | 55 + docs/tutorial/additional_features.rst | 249 + docs/tutorial/advanced.rst | 365 + docs/tutorial/basics.rst | 476 + docs/tutorial/welcome.rst | 178 + docs/tutorial/workflow/.gitignore | 1 + docs/tutorial/workflow/Snakefile | 70 + docs/tutorial/workflow/dag_call.png | Bin 0 -> 23038 bytes docs/tutorial/workflow/dag_index.png | Bin 0 -> 13781 bytes docs/tutorial/workflow/data/genome.fa | 3838 + docs/tutorial/workflow/data/genome.fa.amb | 228 + docs/tutorial/workflow/data/genome.fa.ann | 3 + docs/tutorial/workflow/data/genome.fa.bwt | Bin 0 -> 230320 bytes docs/tutorial/workflow/data/genome.fa.pac | Bin 0 -> 57556 bytes docs/tutorial/workflow/data/genome.fa.sa | Bin 0 -> 115160 bytes docs/tutorial/workflow/data/samples/A.fastq | 100000 ++++++++++++++++++ docs/tutorial/workflow/data/samples/B.fastq | 100000 ++++++++++++++++++ docs/tutorial/workflow/data/samples/C.fastq | 100000 ++++++++++++++++++ docs/tutorial/workflow/package.sh | 1 + docs/tutorial/workflow/requirements.txt | 9 + environment.yml | 7 +- biglogo.pdf => images/biglogo.pdf | Bin biglogo.png => images/biglogo.png | Bin biglogo.svg => images/biglogo.svg | 0 logo.png => images/logo.png | Bin logo.svg => images/logo.svg | 0 setup.py | 1 - snakemake/__init__.py | 35 +- snakemake/__main__.py | 3 + snakemake/conda.py | 19 +- snakemake/dag.py | 127 +- snakemake/executors.py | 73 +- snakemake/jobs.py | 15 +- snakemake/output_index.py | 8 + snakemake/parser.py | 6 +- snakemake/remote/FTP.py | 10 +- snakemake/remote/S3.py | 15 +- snakemake/rules.py | 31 +- snakemake/scheduler.py | 31 +- snakemake/script.py | 21 +- snakemake/utils.py | 7 +- snakemake/version.py | 2 +- snakemake/workflow.py | 28 +- snakemake/wrapper.py | 4 +- tests/test (with parentheses)/Snakefile | 10 + .../expected-results/test.out | 2 + tests/test (with parentheses)/test.in | 2 + tests/test_conda/Snakefile | 13 +- tests/test_dup_out_patterns/Snakefile | 12 + .../expected-results/.gitkeep | 0 tests/test_format_wildcards/Snakefile | 9 + .../test_format_wildcards/expected-results/foo.txt | 1 + tests/test_restartable_job_cmd_exit_1/Snakefile | 19 + .../expected-results/.done | 0 tests/test_restartable_job_cmd_exit_1/qsub | 7 + tests/test_restartable_job_cmd_exit_1/qsub.py | 14 + tests/test_restartable_job_qsub_exit_1/Snakefile | 14 + .../expected-results/.done | 0 tests/test_restartable_job_qsub_exit_1/qsub | 11 + tests/test_restartable_job_qsub_exit_1/qsub.log | 1 + tests/test_restartable_job_qsub_exit_1/qsub.py | 14 + tests/test_threads/Snakefile | 7 + tests/test_threads/expected-results/test.out | 1 + tests/testapi.py | 16 + tests/tests.py | 66 +- wercker.yml | 14 + 99 files changed, 309045 insertions(+), 206 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/snakemake.git _______________________________________________ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit