Package: toil / 3.18.0-2

Metadata

Package Version Patches format
toil 3.18.0-2 3.0 (quilt)

Patch series

view the series file
Patch File delta Description
version.patch | (download)

setup.py | 31 2 + 29 - 0 !
1 file changed, 2 insertions(+), 29 deletions(-)

 allow the use of debian packaged dependencies

no_virtualenv_to_create_manpages.patch | (download)

docs/conf.py | 4 2 + 2 - 0 !
1 file changed, 2 insertions(+), 2 deletions(-)

 ignore requirement to use a virtualenv
setting_version.patch | (download)

src/toil/version.py | 13 13 + 0 - 0 !
1 file changed, 13 insertions(+)

 fixing version.py that is variable and required
no_galaxy_lib | (download)

setup.py | 3 1 + 2 - 0 !
1 file changed, 1 insertion(+), 2 deletions(-)

 skip galaxy-lib, not yet packaged for debian

debianize_docs | (download)

docs/gettingStarted/quickStart.rst | 55 17 + 38 - 0 !
docs/index.rst | 1 0 + 1 - 0 !
2 files changed, 17 insertions(+), 39 deletions(-)

 update docs to reflect a local install

spelling | (download)

docs/appendices/environment_vars.rst | 2 1 + 1 - 0 !
docs/developingWorkflows/developing.rst | 2 1 + 1 - 0 !
docs/running/cloud/amazon.rst | 2 1 + 1 - 0 !
docs/running/cloud/gce.rst | 2 1 + 1 - 0 !
docs/running/cwl.rst | 2 1 + 1 - 0 !
docs/running/wdl.rst | 2 1 + 1 - 0 !
src/toil/job.py | 8 4 + 4 - 0 !
src/toil/jobStores/abstractJobStore.py | 2 1 + 1 - 0 !
src/toil/lib/threading.py | 2 1 + 1 - 0 !
9 files changed, 12 insertions(+), 12 deletions(-)

 lintian-inspired spelling fixes

adjust_to_newer_cwltool | (download)

src/toil/common.py | 2 1 + 1 - 0 !
src/toil/cwl/cwltoil.py | 62 49 + 13 - 0 !
src/toil/jobGraph.py | 3 3 + 0 - 0 !
3 files changed, 53 insertions(+), 14 deletions(-)

 adjust to newer version of cwltool

fix_tests | (download)

src/toil/lib/docker.py | 1 0 + 1 - 0 !
src/toil/test/jobStores/jobStoreTest.py | 152 67 + 85 - 0 !
src/toil/test/src/fileStoreTest.py | 11 7 + 4 - 0 !
src/toil/test/src/jobFileStoreTest.py | 13 12 + 1 - 0 !
4 files changed, 86 insertions(+), 91 deletions(-)

 cherry pick py3 testing fixes from upstream

soften pytest depends | (download)

setup.py | 6 1 + 5 - 0 !
1 file changed, 1 insertion(+), 5 deletions(-)

 no need to depend on testing libraries

soften mesos deps | (download)

setup.py | 4 2 + 2 - 0 !
1 file changed, 2 insertions(+), 2 deletions(-)

 use debian's newer python3-psutil