[med-svn] [snakemake] branch upstream updated (300fdf5 -> 14aba72)
Kevin Murray
daube-guest at moszumanska.debian.org
Fri Jan 29 15:23:15 UTC 2016
This is an automated email from the git hooks/post-receive script.
daube-guest pushed a change to branch upstream
in repository snakemake.
from 300fdf5 Imported Upstream version 3.5.4+dfsg
new 14aba72 Imported Upstream version 3.5.5
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:
docker/Dockerfile | 7 --
snakemake/__init__.py | 26 ++++-
snakemake/dag.py | 75 ++++++++++++-
snakemake/executors.py | 11 +-
snakemake/jobs.py | 10 +-
snakemake/parser.py | 14 ++-
snakemake/remote/FTP.py | 2 +-
snakemake/remote/GS.py | 1 +
snakemake/remote/HTTP.py | 2 +-
snakemake/remote/SFTP.py | 2 +-
snakemake/remote/dropbox.py | 2 +-
snakemake/script.py | 122 +++++++++++----------
snakemake/shell.py | 2 +-
snakemake/version.py | 2 +-
snakemake/workflow.py | 28 ++++-
snakemake/wrapper.py | 22 ++++
tests/test_omitfrom/Snakefile | 54 +++++++++
.../test_omitfrom/expected-results/independent.txt | 0
.../test_omitfrom/expected-results/levelone.txt | 0
.../expected-results/leveltwo_first.txt | 0
.../expected-results/leveltwo_second.txt | 0
.../test_omitfrom/expected-results/test1.second | 0
.../test_omitfrom/expected-results/test2.second | 0
tests/test_until/Snakefile | 54 +++++++++
.../test_until/expected-results/levelone.txt | 0
.../test_until/expected-results/leveltwo_first.txt | 0
.../expected-results/leveltwo_second.txt | 0
.../test_until/expected-results/test1.second | 0
.../test_until/expected-results/test2.second | 0
tests/tests.py | 11 ++
30 files changed, 357 insertions(+), 90 deletions(-)
delete mode 100644 docker/Dockerfile
create mode 100644 snakemake/wrapper.py
create mode 100644 tests/test_omitfrom/Snakefile
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/independent.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/levelone.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/leveltwo_first.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/leveltwo_second.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/test1.second (100%)
copy examples/cufflinks/hg19.fa => tests/test_omitfrom/expected-results/test2.second (100%)
create mode 100644 tests/test_until/Snakefile
copy examples/cufflinks/hg19.fa => tests/test_until/expected-results/levelone.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_until/expected-results/leveltwo_first.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_until/expected-results/leveltwo_second.txt (100%)
copy examples/cufflinks/hg19.fa => tests/test_until/expected-results/test1.second (100%)
copy examples/cufflinks/hg19.fa => tests/test_until/expected-results/test2.second (100%)
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