[med-svn] [falcon] branch master updated (a22c8da -> 334246f)
Afif Elghraoui
afif at moszumanska.debian.org
Mon Nov 14 07:31:26 UTC 2016
This is an automated email from the git hooks/post-receive script.
afif pushed a change to branch master
in repository falcon.
from a22c8da releasing package falcon version 1.7.5-1
new b4e69f8 debian/get-orig-source: handle symlinks pointing to directories
new 2a04b8e Imported Upstream version 1.8.2
new 3ca0355 Merge tag 'upstream/1.8.2'
new 8accac7 Update and refresh patches
new 2f3ddc9 Update d/copyright
new 334246f releasing package falcon version 1.8.2-1
The 6 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:
DALIGNER/LA4Falcon.c | 168 +-
DAMASKER/tandem.c | 2 +-
DAZZ_DB/README | 15 +-
DAZZ_DB/fasta2DB.c | 2 +
{DAMASKER => DEXTRACTOR}/DB.c | 0
{DAMASKER => DEXTRACTOR}/DB.h | 0
{DAMASKER => DEXTRACTOR}/GNUmakefile | 15 +-
{DALIGNER => DEXTRACTOR}/LICENSE | 0
DEXTRACTOR/Makefile | 37 +
{DAMASKER => DEXTRACTOR}/QV.c | 0
{DAMASKER => DEXTRACTOR}/QV.h | 0
DEXTRACTOR/README | 141 ++
DEXTRACTOR/dexqv.c | 164 ++
DEXTRACTOR/dexta.c | 219 +++
DEXTRACTOR/dextract.c | 594 +++++++
DEXTRACTOR/undexqv.c | 230 +++
DEXTRACTOR/undexta.c | 285 ++++
FALCON-examples/git-sym.makefile | 10 +-
FALCON-examples/makefile | 4 +-
FALCON-examples/run/ecoli/input.fofn | 6 +-
FALCON-examples/run/ecoli/makefile | 4 +
FALCON-examples/run/ecoli2/input.fofn | 6 +-
FALCON-examples/run/synth0/check.py | 2 +-
FALCON-examples/run/synth0/data/synth0.fasta | 1750 --------------------
FALCON-examples/run/synth0/data/synth5k/README | 8 +
.../run/synth0/data/{ => synth5k}/ref.fasta | 0
.../run/synth0/data/synth5k/subreads.dexta | Bin 0 -> 25665 bytes
.../run/synth0/data/synth5k/synth5k.bam | Bin 0 -> 35341 bytes
.../run/synth0/data/synth5k/synth5k.bam.bai | Bin 0 -> 16 bytes
.../run/synth0/data/synth5k/synth5k.bam.pbi | Bin 0 -> 346 bytes
.../run/synth0/data/synth5k/synth5k.xml | 15 +
FALCON-examples/run/synth0/fc_run.cfg | 14 +-
FALCON-examples/run/synth0/input.fofn | 2 +-
FALCON-make/makefile | 5 +-
FALCON/falcon_kit/bash.py | 37 +-
FALCON/falcon_kit/functional.py | 85 +-
FALCON/falcon_kit/mains/ovlp_to_graph.py | 35 +-
FALCON/falcon_kit/mains/run0.py | 683 --------
FALCON/falcon_kit/mains/run1.py | 738 ++++-----
FALCON/falcon_kit/pype_tasks.py | 398 +++++
FALCON/falcon_kit/run_support.py | 69 +-
FALCON/falcon_kit/stats_preassembly.py | 5 +-
FALCON/setup.py | 1 -
FALCON/test/se161.sh | 836 ++++++++++
FALCON/test/test_functional.py | 18 +-
debian/changelog | 9 +
debian/copyright | 32 +-
debian/get-orig-source | 2 +-
debian/patches/build-system.patch | 12 +-
debian/patches/rdflib.patch | 2 +-
debian/patches/versioned-deps.patch | 4 +-
pypeFLOW/LICENSE | 32 +
pypeFLOW/License.txt | 20 -
pypeFLOW/pwatcher/blocking.py | 464 ++++++
pypeFLOW/pwatcher/fs_based.py | 60 +-
pypeFLOW/pwatcher/mains/job_start.sh | 36 +
pypeFLOW/pwatcher/mains/network_heartbeat.py | 176 ++
pypeFLOW/pwatcher/mains/query_server.py | 125 ++
pypeFLOW/pwatcher/network_based.py | 1031 ++++++++++++
pypeFLOW/pypeflow/do_support.py | 51 +
pypeFLOW/pypeflow/do_task.py | 149 ++
pypeFLOW/pypeflow/pwatcher_bridge.py | 59 +-
pypeFLOW/pypeflow/simple_pwatcher_bridge.py | 566 +++++++
pypeFLOW/pypeflow/util.py | 31 +
pypeFLOW/setup.py | 2 +
pypeFLOW/travis.sh | 2 +-
66 files changed, 6412 insertions(+), 3056 deletions(-)
copy {DAMASKER => DEXTRACTOR}/DB.c (100%)
copy {DAMASKER => DEXTRACTOR}/DB.h (100%)
copy {DAMASKER => DEXTRACTOR}/GNUmakefile (62%)
copy {DALIGNER => DEXTRACTOR}/LICENSE (100%)
create mode 100644 DEXTRACTOR/Makefile
copy {DAMASKER => DEXTRACTOR}/QV.c (100%)
copy {DAMASKER => DEXTRACTOR}/QV.h (100%)
create mode 100644 DEXTRACTOR/README
create mode 100644 DEXTRACTOR/dexqv.c
create mode 100644 DEXTRACTOR/dexta.c
create mode 100644 DEXTRACTOR/dextract.c
create mode 100644 DEXTRACTOR/undexqv.c
create mode 100644 DEXTRACTOR/undexta.c
create mode 100644 FALCON-examples/run/ecoli/makefile
delete mode 100644 FALCON-examples/run/synth0/data/synth0.fasta
create mode 100644 FALCON-examples/run/synth0/data/synth5k/README
rename FALCON-examples/run/synth0/data/{ => synth5k}/ref.fasta (100%)
create mode 100644 FALCON-examples/run/synth0/data/synth5k/subreads.dexta
create mode 100644 FALCON-examples/run/synth0/data/synth5k/synth5k.bam
create mode 100644 FALCON-examples/run/synth0/data/synth5k/synth5k.bam.bai
create mode 100644 FALCON-examples/run/synth0/data/synth5k/synth5k.bam.pbi
create mode 100644 FALCON-examples/run/synth0/data/synth5k/synth5k.xml
delete mode 100644 FALCON/falcon_kit/mains/run0.py
create mode 100644 FALCON/falcon_kit/pype_tasks.py
create mode 100644 FALCON/test/se161.sh
create mode 100644 pypeFLOW/LICENSE
delete mode 100644 pypeFLOW/License.txt
create mode 100755 pypeFLOW/pwatcher/blocking.py
create mode 100755 pypeFLOW/pwatcher/mains/job_start.sh
create mode 100644 pypeFLOW/pwatcher/mains/network_heartbeat.py
create mode 100755 pypeFLOW/pwatcher/mains/query_server.py
create mode 100755 pypeFLOW/pwatcher/network_based.py
create mode 100644 pypeFLOW/pypeflow/do_support.py
create mode 100644 pypeFLOW/pypeflow/do_task.py
create mode 100644 pypeFLOW/pypeflow/simple_pwatcher_bridge.py
create mode 100644 pypeFLOW/pypeflow/util.py
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/falcon.git
More information about the debian-med-commit
mailing list