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commit 542930b9136fc8a2963826fe4df0b54ebc376a4f Merge: bd767ea 67b5061 Author: Afif Elghraoui <[email protected]> Date: Fri Dec 2 00:13:26 2016 -0800 Merge tag 'upstream/1.8.4' Upstream version 1.8.4 DALIGNER/LAmerge.c | 2 +- DAZZ_DB/GNUmakefile | 2 +- FALCON/falcon_kit/mains/get_read_ctg_map.py | 12 +- FALCON/falcon_kit/mains/run1.py | 50 +- FALCON_unzip/LICENSE.txt | 32 + FALCON_unzip/README.md | 1 + FALCON_unzip/examples/fc_unzip.cfg | 17 + FALCON_unzip/examples/unzip.sh | 2 + FALCON_unzip/examples/unzip_obsoleted.sh | 33 + FALCON_unzip/falcon_unzip/__init__.py | 36 + FALCON_unzip/falcon_unzip/dedup_h_tigs.py | 70 + FALCON_unzip/falcon_unzip/get_read_hctg_map.py | 110 ++ FALCON_unzip/falcon_unzip/graphs_to_h_tigs.py | 678 +++++++++ .../falcon_unzip/ovlp_filter_with_phase.py | 354 +++++ FALCON_unzip/falcon_unzip/phased_ovlp_to_graph.py | 1545 ++++++++++++++++++++ FALCON_unzip/falcon_unzip/phasing.py | 569 +++++++ FALCON_unzip/falcon_unzip/phasing_readmap.py | 73 + FALCON_unzip/falcon_unzip/rr_hctg_track.py | 201 +++ FALCON_unzip/falcon_unzip/run_quiver.py | 394 +++++ FALCON_unzip/falcon_unzip/select_reads_from_bam.py | 113 ++ FALCON_unzip/falcon_unzip/unzip.py | 357 +++++ FALCON_unzip/setup.py | 24 + FALCON_unzip/src/py_scripts/fc_dedup_h_tigs.py | 4 + .../src/py_scripts/fc_get_read_hctg_map.py | 4 + FALCON_unzip/src/py_scripts/fc_graphs_to_h_tigs.py | 4 + .../src/py_scripts/fc_ovlp_filter_with_phase.py | 6 + .../src/py_scripts/fc_phased_ovlp_to_graph.py | 5 + FALCON_unzip/src/py_scripts/fc_phasing.py | 5 + FALCON_unzip/src/py_scripts/fc_phasing_readmap.py | 4 + FALCON_unzip/src/py_scripts/fc_quiver.py | 4 + FALCON_unzip/src/py_scripts/fc_rr_hctg_track.py | 4 + .../src/py_scripts/fc_select_reads_from_bam.py | 4 + .../src/py_scripts/fc_track_reads_htigs0.py | 398 +++++ FALCON_unzip/src/py_scripts/fc_unzip.py | 4 + FALCON_unzip/src/py_utils/align.sh | 10 + FALCON_unzip/src/py_utils/call_SV_from_mum.py | 85 ++ FALCON_unzip/src/py_utils/fetch_read.py | 12 + FALCON_unzip/src/py_utils/split_bam.py | 28 + pypeFLOW/pwatcher/fs_based.py | 2 +- pypeFLOW/pwatcher/network_based.py | 2 +- pypeFLOW/pypeflow/simple_pwatcher_bridge.py | 10 +- 41 files changed, 5213 insertions(+), 57 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/falcon.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
