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hisat2_2.1.0-3_amd64.changes (click to toggle)
Format:1.8
Date:Mon, 30 Dec 2019 20:08:00 +0100
Source:hisat2
Binary:hisat2 hisat2-dbgsym python3-hisat2
Architecture:source amd64 all
Version:2.1.0-3
Distribution:unstable
Urgency:medium
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By:Michael R. Crusoe <michael.crusoe@gmail.com>
Description:
hisat2     - graph-based alignment of short nucleotide reads to many genomes
python3-hisat2 - Python scripts accompanying hisat2
Closes:943125
Changes:
hisat2 (2.1.0-3) unstable; urgency=medium

  [ Steffen Moeller ]
  * Separated series of .py scripts and modules into separate
    python3-hisat2 package.

  [ Saira Hussain ]
  * Add autopkgtest

  [ Andreas Tille ]
  * Install hisat2_extract_splice_sites.py
  * Recommends: bcftools, samtools

  [ Michael R. Crusoe ]
  * Include SIMD everywhere headers and enable building on all architectures.
  * debhelper-compat 12
  * Remove trailing whitespace in debian/control
  * Ported Python scripts to Python 3 using 2to3. Closes: #943125
Files:
5a62d8f86d21383b43cae17e6fcb5d19 2095 science optional hisat2_2.1.0-3.dsc
a0f7c260fe69da1647c81cfb8d833e16 82632 science optional hisat2_2.1.0-3.debian.tar.xz
4298d8618dc2410beb19fda7f2ae7259 10415428 debug optional hisat2-dbgsym_2.1.0-3_amd64.deb
2065cb1b818dc07b9177ddcdf6df86c7 6352 science optional hisat2_2.1.0-3_amd64.buildinfo
13faa26a51d3da3f87e36a9b5a6ca4b7 3378244 science optional hisat2_2.1.0-3_amd64.deb
86a51d78b6466778d768fceb72853c0e 13388 python optional python3-hisat2_2.1.0-3_all.deb
control file for hisat2-dbgsym_2.1.0-3_amd64.deb (click to toggle)
Package:hisat2-dbgsym
Source:hisat2
Version:2.1.0-3
Auto-Built-Package:debug-symbols
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:10648
Depends:hisat2 (=2.1.0-3)
Section:debug
Priority:optional
Description:
debug symbols for hisat2
Build-Ids:178f41007b6a82fc10247139dff407abf739a9d6 26e43cfcba8e742daf3a46b94c84a04fe668dd3e 28d5d7af10d767dfda22a58489566892cd58fb37 4c848d6225b0cb7a21e2d0ec4f07e71336b082ac 54d157d8a59a3c8107566225220bf3c763d685a3 b5ffe02287d26179afa6e5b41ea570b641ac32b3
lintian 2.40.0~bpo9+1 check for hisat2-dbgsym_2.1.0-3_amd64.deb (click to toggle)
contents of hisat2-dbgsym_2.1.0-3_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2019-12-30 19:08 ./
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/17/
-rw-r--r-- root/root   2798568 2019-12-30 19:08 ./usr/lib/debug/.build-id/17/8f41007b6a82fc10247139dff407abf739a9d6.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/26/
-rw-r--r-- root/root   1494352 2019-12-30 19:08 ./usr/lib/debug/.build-id/26/e43cfcba8e742daf3a46b94c84a04fe668dd3e.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/28/
-rw-r--r-- root/root   2801928 2019-12-30 19:08 ./usr/lib/debug/.build-id/28/d5d7af10d767dfda22a58489566892cd58fb37.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/4c/
-rw-r--r-- root/root    900560 2019-12-30 19:08 ./usr/lib/debug/.build-id/4c/848d6225b0cb7a21e2d0ec4f07e71336b082ac.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/54/
-rw-r--r-- root/root   1501872 2019-12-30 19:08 ./usr/lib/debug/.build-id/54/d157d8a59a3c8107566225220bf3c763d685a3.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.build-id/b5/
-rw-r--r-- root/root    906152 2019-12-30 19:08 ./usr/lib/debug/.build-id/b5/ffe02287d26179afa6e5b41ea570b641ac32b3.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/
-rw-r--r-- root/root    480128 2019-12-30 19:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/hisat2.debug
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/doc/
lrwxrwxrwx root/root         0 2019-12-30 19:08 ./usr/share/doc/hisat2-dbgsym -> hisat2
control file for python3-hisat2_2.1.0-3_all.deb (click to toggle)
Package:python3-hisat2
Source:hisat2
Version:2.1.0-3
Architecture:all
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:77
Depends:hisat2, python3
Section:python
Priority:optional
Homepage:https://ccb.jhu.edu/software/hisat2/index.shtml
Description:
Python scripts accompanying hisat2
 HISAT2 is a fast and sensitive alignment program for mapping next-
 generation sequencing reads (both DNA and RNA) to a population of human
 genomes (as well as against a single reference genome). Based on an
 extension of BWT for graphs a graph FM index (GFM) was designed and
 implementd. In addition to using one global GFM index that represents a
 population of human genomes, HISAT2 uses a large set of small GFM
 indexes that collectively cover the whole genome (each index
 representing a genomic region of 56 Kbp, with 55,000 indexes needed to
 cover the human population). These small indexes (called local indexes),
 combined with several alignment strategies, enable rapid and accurate
 alignment of sequencing reads. This new indexing scheme is called a
 Hierarchical Graph FM index (HGFM).
 .
 This package provides a serires of platform-independent scripts that are
 typically expected to be co-installed with the hisat2 binary.
lintian 2.40.0~bpo9+1 check for python3-hisat2_2.1.0-3_all.deb (click to toggle)
W: python3-hisat2: binary-without-manpage usr/bin/hisat2_extract_exons.py
W: python3-hisat2: binary-without-manpage usr/bin/hisat2_extract_snps_haplotypes_UCSC.py
W: python3-hisat2: binary-without-manpage usr/bin/hisat2_extract_snps_haplotypes_VCF.py
W: python3-hisat2: binary-without-manpage usr/bin/hisat2_extract_splice_sites.py
N: see https://lists.debian.org/debian-med/2018/06/msg00043.html
O: python3-hisat2: script-with-language-extension usr/bin/hisat2_extract_exons.py
N: see https://lists.debian.org/debian-med/2018/06/msg00043.html
O: python3-hisat2: script-with-language-extension usr/bin/hisat2_extract_snps_haplotypes_UCSC.py
N: see https://lists.debian.org/debian-med/2018/06/msg00043.html
O: python3-hisat2: script-with-language-extension usr/bin/hisat2_extract_snps_haplotypes_VCF.py
N: see https://lists.debian.org/debian-med/2018/06/msg00043.html
O: python3-hisat2: script-with-language-extension usr/bin/hisat2_extract_splice_sites.py
contents of python3-hisat2_2.1.0-3_all.deb (click to toggle)
drwxr-xr-x root/root         0 2019-12-30 19:08 ./
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/bin/
-rwxr-xr-x root/root      5573 2019-12-30 19:08 ./usr/bin/hisat2_extract_exons.py
-rwxr-xr-x root/root     19251 2019-12-30 19:08 ./usr/bin/hisat2_extract_snps_haplotypes_UCSC.py
-rwxr-xr-x root/root     33708 2019-12-30 19:08 ./usr/bin/hisat2_extract_snps_haplotypes_VCF.py
-rwxr-xr-x root/root      5009 2019-12-30 19:08 ./usr/bin/hisat2_extract_splice_sites.py
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/doc/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/doc/python3-hisat2/
-rw-r--r-- root/root       959 2019-12-30 19:08 ./usr/share/doc/python3-hisat2/changelog.Debian.gz
-rw-r--r-- root/root      2321 2019-12-30 19:08 ./usr/share/doc/python3-hisat2/copyright
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/lintian/
drwxr-xr-x root/root         0 2019-12-30 19:08 ./usr/share/lintian/overrides/
-rw-r--r-- root/root       123 2019-12-30 19:08 ./usr/share/lintian/overrides/python3-hisat2

Timestamp: 01.01.2020 / 09:12:13 (UTC)