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hinge_0.5.0-1_amd64.changes (click to toggle)
Format:1.8
Date:Fri, 20 Oct 2017 00:27:38 -0400
Source:hinge
Binary:hinge
Architecture:source amd64
Version:0.5.0-1
Distribution:unstable
Urgency:medium
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By:Afif Elghraoui <afif@debian.org>
Description:
hinge      - long read genome assembler based on hinging
Closes:878962
Changes:
hinge (0.5.0-1) unstable; urgency=medium

  * Initial release (Closes: #878962)
Files:
3070d6995984e38f90990843ad52ab75 2011 science optional hinge_0.5.0-1.dsc
7c63320a86b69048cf778d96322054d2 477385 science optional hinge_0.5.0.orig.tar.gz
a801123c666aaf2fc1b9c6529299e55d 4180 science optional hinge_0.5.0-1.debian.tar.xz
cc13fb0785ac6696709dac6e35e2307b 5107720 debug optional hinge-dbgsym_0.5.0-1_amd64.deb
a6cf5f53cec6719b3591e1890fabead8 7837 science optional hinge_0.5.0-1_amd64.buildinfo
4d677cf3c9e274c03c4d296edcdf0988 389940 science optional hinge_0.5.0-1_amd64.deb
hinge_0.5.0-1.dsc (click to toggle)
Format:3.0 (quilt)
Source:hinge
Binary:hinge
Architecture:any
Version:0.5.0-1
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:Afif Elghraoui <afif@debian.org>
Homepage:https://github.com/HingeAssembler/HINGE
Standards-Version:3.9.8
Vcs-Browser:https://anonscm.debian.org/cgit/debian-med/hinge.git
Vcs-Git:https://anonscm.debian.org/git/debian-med/hinge.git
Build-Depends:debhelper (>=9), cmake, libspdlog-dev, libboost-dev, libboost-graph-dev, libhdf5-dev, zlib1g-dev, pandoc
Package-List:hinge deb science optional arch=any
Files:
7c63320a86b69048cf778d96322054d2 477385 hinge_0.5.0.orig.tar.gz
a801123c666aaf2fc1b9c6529299e55d 4180 hinge_0.5.0-1.debian.tar.xz
lintian check for hinge_0.5.0-1.dsc (click to toggle)
README.source for hinge_0.5.0-1.dsc (click to toggle)
No README.source in this package
control file for hinge-dbgsym_0.5.0-1_amd64.deb (click to toggle)
Package:hinge-dbgsym
Source:hinge
Version:0.5.0-1
Auto-Built-Package:debug-symbols
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:5395
Depends:hinge (=0.5.0-1)
Section:debug
Priority:optional
Description:
debug symbols for hinge
Build-Ids:359c40e65dd135678113b7bd6d0bff2d42fc12e8 5b8392d6300b3df1ee7b87b706b0b6061a8664c7 637ccedb1eed97da020a065d5f68f44336afd7c7 68a4af2afffa23a4c08edbb87d102ac3e25a7432 7c89c0ffe24aaacabd2007d50509da61773d5d46
lintian check for hinge-dbgsym_0.5.0-1_amd64.deb (click to toggle)
contents of hinge-dbgsym_0.5.0-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2017-10-20 04:27 ./
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/35/
-rw-r--r-- root/root   1170000 2017-10-20 04:27 ./usr/lib/debug/.build-id/35/9c40e65dd135678113b7bd6d0bff2d42fc12e8.debug
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/5b/
-rw-r--r-- root/root   1355976 2017-10-20 04:27 ./usr/lib/debug/.build-id/5b/8392d6300b3df1ee7b87b706b0b6061a8664c7.debug
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/63/
-rw-r--r-- root/root   1140888 2017-10-20 04:27 ./usr/lib/debug/.build-id/63/7ccedb1eed97da020a065d5f68f44336afd7c7.debug
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/68/
-rw-r--r-- root/root    449312 2017-10-20 04:27 ./usr/lib/debug/.build-id/68/a4af2afffa23a4c08edbb87d102ac3e25a7432.debug
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/debug/.build-id/7c/
-rw-r--r-- root/root   1390824 2017-10-20 04:27 ./usr/lib/debug/.build-id/7c/89c0ffe24aaacabd2007d50509da61773d5d46.debug
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/doc/
lrwxrwxrwx root/root         0 2017-10-20 04:27 ./usr/share/doc/hinge-dbgsym -> hinge
control file for hinge_0.5.0-1_amd64.deb (click to toggle)
Package:hinge
Version:0.5.0-1
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:2443
Depends:libc6 (>=2.14), libgcc1 (>=1:3.0), libgomp1 (>=4.2.1), libstdc++6 (>=5.2), zlib1g (>=1:1.1.4), python, daligner, dazzdb, dascrubber, python-numpy, python-ujson, python-configparser, python-colormap, python-pbcore, python-networkx, python-matplotlib
Section:science
Priority:optional
Homepage:https://github.com/HingeAssembler/HINGE
Description:
long read genome assembler based on hinging
 HINGE is a genome assembler that seeks to achieve optimal repeat resolution
 by distinguishing repeats that can be resolved given the data from those that
 cannot. This is accomplished by adding “hinges” to reads for constructing an
 overlap graph where only unresolvable repeats are merged. As a result, HINGE
 combines the error resilience of overlap-based assemblers with
 repeat-resolution capabilities of de Bruijn graph assemblers.
lintian check for hinge_0.5.0-1_amd64.deb (click to toggle)
contents of hinge_0.5.0-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2017-10-20 04:27 ./
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/bin/
-rwxr-xr-x root/root       840 2017-08-13 23:05 ./usr/bin/hinge
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/lib/hinge/
-rwxr-xr-x root/root    462744 2017-10-20 04:27 ./usr/lib/hinge/Reads_filter
-rwxr-xr-x root/root      1717 2017-08-13 23:05 ./usr/lib/hinge/Visualise_graph.py
-rwxr-xr-x root/root      1808 2017-08-13 23:05 ./usr/lib/hinge/add_groundtruth.py
-rw-r--r-- root/root      1493 2017-08-13 23:05 ./usr/lib/hinge/add_groundtruth_json.py
-rw-r--r-- root/root       934 2017-08-13 23:05 ./usr/lib/hinge/clip_ends.py
-rw-r--r-- root/root      2611 2017-08-13 23:05 ./usr/lib/hinge/compute_n50_from_draft.py
-rwxr-xr-x root/root      5457 2017-08-13 23:05 ./usr/lib/hinge/condense_graph.py
-rwxr-xr-x root/root      6852 2017-08-13 23:05 ./usr/lib/hinge/condense_graph_and_annotate.py
-rwxr-xr-x root/root      8810 2017-08-13 23:05 ./usr/lib/hinge/condense_graph_annotate_clip_ends.py
-rwxr-xr-x root/root      7164 2017-08-13 23:05 ./usr/lib/hinge/condense_graph_create_gfa_compute_n50.py
-rwxr-xr-x root/root      6522 2017-08-13 23:05 ./usr/lib/hinge/condense_graph_with_gt.py
-rwxr-xr-x root/root      1681 2017-08-13 23:05 ./usr/lib/hinge/connected.py
-rwxr-xr-x root/root    232496 2017-10-20 04:27 ./usr/lib/hinge/consensus
-rwxr-xr-x root/root      1240 2017-08-13 23:05 ./usr/lib/hinge/correct_head.py
-rwxr-xr-x root/root       811 2017-08-13 23:05 ./usr/lib/hinge/create_bandage_file.py
-rwxr-xr-x root/root      1836 2017-08-13 23:05 ./usr/lib/hinge/create_hgraph.py
-rw-r--r-- root/root       871 2017-08-13 23:05 ./usr/lib/hinge/create_hgraph_nogt.py
-rw-r--r-- root/root      1241 2017-08-13 23:05 ./usr/lib/hinge/download_NCTC_pipeline.py
-rwxr-xr-x root/root    491416 2017-10-20 04:27 ./usr/lib/hinge/draft_assembly
-rwxr-xr-x root/root       864 2017-08-13 23:05 ./usr/lib/hinge/draft_assembly.py
-rwxr-xr-x root/root       864 2017-08-13 23:05 ./usr/lib/hinge/draft_assembly_not_perfect.py
-rwxr-xr-x root/root      5882 2017-08-13 23:05 ./usr/lib/hinge/draw2.py
-rwxr-xr-x root/root      4505 2017-08-13 23:05 ./usr/lib/hinge/draw2_pileup.py
-rwxr-xr-x root/root      4325 2017-08-13 23:05 ./usr/lib/hinge/draw2_pileup_region.py
-rwxr-xr-x root/root      5609 2017-08-13 23:05 ./usr/lib/hinge/draw2_pileup_w_repeat.py
-rwxr-xr-x root/root      4936 2017-08-13 23:05 ./usr/lib/hinge/draw_pileup_region.py
-rwxr-xr-x root/root      4984 2017-08-13 23:05 ./usr/lib/hinge/draw_pileup_region_find_bridges.py
-rwxr-xr-x root/root       457 2017-08-13 23:05 ./usr/lib/hinge/fasta_to_fastq.py
-rw-r--r-- root/root      1854 2017-08-13 23:05 ./usr/lib/hinge/get_NCTC_json.py
-rwxr-xr-x root/root      2777 2017-08-13 23:05 ./usr/lib/hinge/get_consensus_gfa.py
-rwxr-xr-x root/root     13769 2017-08-13 23:05 ./usr/lib/hinge/get_draft_annotation.py
-rwxr-xr-x root/root     15185 2017-08-13 23:05 ./usr/lib/hinge/get_draft_path.py
-rwxr-xr-x root/root       390 2017-08-13 23:05 ./usr/lib/hinge/get_draft_path_norevcomp.py
-rwxr-xr-x root/root    450456 2017-10-20 04:27 ./usr/lib/hinge/get_maximal_reads
-rw-r--r-- root/root       376 2017-08-13 23:05 ./usr/lib/hinge/get_single_strand.py
-rwxr-xr-x root/root    499640 2017-10-20 04:27 ./usr/lib/hinge/hinging
-rwxr-xr-x root/root      3734 2017-08-13 23:05 ./usr/lib/hinge/interface_utils.py
-rwxr-xr-x root/root      1475 2017-08-13 23:05 ./usr/lib/hinge/longest_path.py
-rwxr-xr-x root/root     20780 2017-08-13 23:05 ./usr/lib/hinge/merge_hinges.py
-rwxr-xr-x root/root       578 2017-08-13 23:05 ./usr/lib/hinge/parallel_draw.sh
-rwxr-xr-x root/root       390 2017-08-13 23:05 ./usr/lib/hinge/parallel_draw_large.sh
-rwxr-xr-x root/root      1286 2017-08-13 23:05 ./usr/lib/hinge/parse.py
-rwxr-xr-x root/root       751 2017-08-13 23:05 ./usr/lib/hinge/parse_alignment.py
-rwxr-xr-x root/root       317 2017-08-13 23:05 ./usr/lib/hinge/parse_qv.py
-rwxr-xr-x root/root       661 2017-08-13 23:05 ./usr/lib/hinge/parse_read.py
-rw-r--r-- root/root     17341 2017-08-13 23:05 ./usr/lib/hinge/pileup.ipynb
-rwxr-xr-x root/root      3366 2017-08-13 23:05 ./usr/lib/hinge/pipeline_consensus.py
-rwxr-xr-x root/root      3169 2017-08-13 23:05 ./usr/lib/hinge/pipeline_consensus_norevcomp.py
-rwxr-xr-x root/root      2552 2017-08-13 23:05 ./usr/lib/hinge/pipeline_nctc.py
-rwxr-xr-x root/root     47731 2017-08-13 23:05 ./usr/lib/hinge/pruning_and_clipping.py
-rwxr-xr-x root/root     42343 2017-08-13 23:05 ./usr/lib/hinge/pruning_and_clipping_nanopore.py
-rwxr-xr-x root/root      9305 2017-08-13 23:05 ./usr/lib/hinge/random_condensation.py
-rwxr-xr-x root/root      3524 2017-08-13 23:05 ./usr/lib/hinge/repeat_annotate_reads.py
-rwxr-xr-x root/root      1130 2017-08-13 23:05 ./usr/lib/hinge/run_mapping.py
-rwxr-xr-x root/root      1410 2017-08-13 23:05 ./usr/lib/hinge/run_mapping2.py
-rwxr-xr-x root/root      1413 2017-08-13 23:05 ./usr/lib/hinge/run_mapping3.py
-rwxr-xr-x root/root       408 2017-08-13 23:05 ./usr/lib/hinge/run_parse_alignment.py
-rwxr-xr-x root/root       357 2017-08-13 23:05 ./usr/lib/hinge/run_parse_read.py
-rwxr-xr-x root/root       637 2017-08-13 23:05 ./usr/lib/hinge/split_las.py
-rwxr-xr-x root/root      4100 2017-08-13 23:05 ./usr/lib/hinge/unitig.py
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/doc/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/doc/hinge/
-rw-r--r-- root/root      2605 2017-08-13 23:05 ./usr/share/doc/hinge/README.md.gz
-rw-r--r-- root/root       155 2017-10-20 04:27 ./usr/share/doc/hinge/changelog.Debian.gz
-rw-r--r-- root/root      8035 2017-05-23 03:14 ./usr/share/doc/hinge/copyright
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/doc/hinge/examples/
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/NCTC9657_demo/
-rw-r--r-- root/root      1189 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/NCTC9657_demo/run.sh
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_P4_demo/
-rw-r--r-- root/root      1224 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_P4_demo/run.sh
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_demo/
-rw-r--r-- root/root      1215 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_demo/run.sh
-rw-r--r-- root/root      1212 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_demo/run_norevcomp.sh
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_nanopore/
-rw-r--r-- root/root      1285 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/ecoli_nanopore/run.sh
drwxr-xr-x root/root         0 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/yeast_W303_demo/
-rw-r--r-- root/root       461 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/yeast_W303_demo/nominal.ini
-rw-r--r-- root/root      1134 2017-08-13 23:05 ./usr/share/doc/hinge/examples/demo/yeast_W303_demo/run.sh
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/doc/hinge/examples/utils/
-rw-r--r-- root/root       421 2017-10-20 04:27 ./usr/share/doc/hinge/examples/utils/nominal.ini
-rw-r--r-- root/root      1972 2017-08-13 23:05 ./usr/share/doc/hinge/parameter_description.md.gz
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/man/
drwxr-xr-x root/root         0 2017-10-20 04:27 ./usr/share/man/man1/
-rw-r--r-- root/root       515 2017-10-20 04:27 ./usr/share/man/man1/hinge.1.gz

Timestamp: 20.10.2017 / 05:01:13 (UTC)