Debian NEW package overview for tipp
tipp_1.0+dfsg-1_amd64.changes (click to toggle)
Format:1.8
Date:Thu, 30 Sep 2021 14:45:31 +0200
Source:tipp
Binary:tipp
Architecture:source amd64
Version:1.0+dfsg-1
Distribution:experimental
Urgency:medium
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By:Pierre Gruet <pgt@debian.org>
Description:
tipp       - tool for Taxonomic Identification and Phylogenetic Profiling
Closes:995294
Changes:
tipp (1.0+dfsg-1) experimental; urgency=medium

  * Initial release (Closes: #995294)
Files:
9091e0d6e0fd78a6e00d8c8072b8c2c7 2040 science optional tipp_1.0+dfsg-1.dsc
71211248cd41a5e336e9aa6dcb1e1beb 67084 science optional tipp_1.0+dfsg.orig.tar.xz
90a2901219686517ef774ffb3b44b36a 10056 science optional tipp_1.0+dfsg-1.debian.tar.xz
33ff706e5dd1521711b61a7aaa87337f 10067 science optional tipp_1.0+dfsg-1_amd64.buildinfo
d06ff8466b40d160a3eb2d05522dfb72 129236 science optional tipp_1.0+dfsg-1_amd64.deb
tipp_1.0+dfsg-1.dsc (click to toggle)
Format:3.0 (quilt)
Source:tipp
Binary:tipp
Architecture:any
Version:1.0+dfsg-1
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:Pierre Gruet <pgt@debian.org>
Homepage:https://github.com/TeraTrees/TIPP
Standards-Version:4.6.0
Vcs-Browser:https://salsa.debian.org/med-team/tipp
Vcs-Git:https://salsa.debian.org/med-team/tipp.git
Build-Depends:debhelper-compat (=13), dh-python, python3, python3-setuptools, python3-dendropy, ant, libjenkins-json-java, libgoogle-gson-java, ncbi-blast+, sepp (>=4.5.1+really4.5.1+dfsg-1~)
Package-List:tipp deb science optional arch=any
Files:
71211248cd41a5e336e9aa6dcb1e1beb 67084 tipp_1.0+dfsg.orig.tar.xz
90a2901219686517ef774ffb3b44b36a 10056 tipp_1.0+dfsg-1.debian.tar.xz
lintian 2.94.0~bpo10+1 check for tipp_1.0+dfsg-1.dsc (click to toggle)
README.source for tipp_1.0+dfsg-1.dsc (click to toggle)
We have brought changes to the upstream packaging by not using the path.config
file from upstream and instead providing the configuration file as a conffile:
a default version is placed into /etc/tipp, and every user can make a copy to a
dot directory in their home directory in order to be able to edit them. This
is explained in debian/README.Debian.

Besides, to be run, tipp depends on a reference dataset that has to be
downloaded by the user. Again this is explained in debian/README.Debian.

 -- Pierre Gruet <pgt@debian.org>  Sat, 25 Sep 2021 15:43:52 +0200
control file for tipp_1.0+dfsg-1_amd64.deb (click to toggle)
Package:tipp
Version:1.0+dfsg-1
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:221
Depends:python3-dendropy, python3:any, sepp (>=4.5.1+really4.5.1+dfsg-1~), default-jre, libjenkins-json-java, libgoogle-gson-java, libjson-java, ncbi-blast+
Section:science
Priority:optional
Homepage:https://github.com/TeraTrees/TIPP
Description:
tool for Taxonomic Identification and Phylogenetic Profiling
 TIPP is a modification of SEPP for classifying query sequences (i.e. reads)
 using phylogenetic placement.
 .
 TIPP inserts each read into a taxonomic tree and uses the insertion location
 to identify the taxonomic lineage of the read. The novel idea behind TIPP is
 that rather than using the single best alignment and placement for taxonomic
 identification, it uses a collection of alignments and placements and
 considers statistical support for each alignment and placement.
 .
 TIPP can also be used for abundance estimation by computing an abundance
 profile on the reads binned to marker genes in a reference dataset.
lintian 2.94.0~bpo10+1 check for tipp_1.0+dfsg-1_amd64.deb (click to toggle)
contents of tipp_1.0+dfsg-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2021-09-30 12:45 ./
drwxr-xr-x root/root         0 2021-09-30 12:45 ./etc/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./etc/tipp/
-rw-r--r-- root/root       445 2021-09-30 12:45 ./etc/tipp/tipp.config
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/bin/
-rwxr-xr-x root/root      1023 2021-09-30 12:45 ./usr/bin/run_abundance.py
-rwxr-xr-x root/root      1026 2021-09-30 12:45 ./usr/bin/run_tipp.py
-rwxr-xr-x root/root      2618 2021-09-30 12:45 ./usr/bin/run_tipp_tool.py
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/lib/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/lib/python3/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/lib/python3/dist-packages/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp/
-rw-r--r-- root/root      2667 2021-02-22 01:27 ./usr/lib/python3/dist-packages/tipp/__init__.py
-rw-r--r-- root/root     24588 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp/exhaustive_tipp.py
-rw-r--r-- root/root     34857 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp/metagenomics.py
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp-1.1.0.egg-info/
-rw-r--r-- root/root       718 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp-1.1.0.egg-info/PKG-INFO
-rw-r--r-- root/root         1 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp-1.1.0.egg-info/dependency_links.txt
-rw-r--r-- root/root         0 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp-1.1.0.egg-info/requires.txt
-rw-r--r-- root/root         5 2021-09-30 12:45 ./usr/lib/python3/dist-packages/tipp-1.1.0.egg-info/top_level.txt
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/doc/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/doc/tipp/
-rw-r--r-- root/root      1540 2021-09-25 19:04 ./usr/share/doc/tipp/README.Debian
-rw-r--r-- root/root      3345 2021-02-22 01:27 ./usr/share/doc/tipp/README.md.gz
-rw-r--r-- root/root       157 2021-09-30 12:45 ./usr/share/doc/tipp/changelog.Debian.gz
-rw-r--r-- root/root      1032 2021-09-29 13:11 ./usr/share/doc/tipp/copyright
-rw-r--r-- root/root      7749 2021-02-22 01:27 ./usr/share/doc/tipp/tipp-tutorial.md.gz
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/lintian/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/lintian/overrides/
-rw-r--r-- root/root       108 2021-09-25 13:39 ./usr/share/lintian/overrides/tipp
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/man/
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/man/man1/
-rw-r--r-- root/root      2123 2021-09-30 12:45 ./usr/share/man/man1/run_abundance.py.1.gz
-rw-r--r-- root/root      2401 2021-09-30 12:45 ./usr/share/man/man1/run_tipp.py.1.gz
-rw-r--r-- root/root       508 2021-09-30 12:45 ./usr/share/man/man1/run_tipp_tool.py.1.gz
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/man/man5/
-rw-r--r-- root/root      1391 2021-09-30 12:45 ./usr/share/man/man5/tipp.config.5.gz
drwxr-xr-x root/root         0 2021-09-30 12:45 ./usr/share/tipp/
-rw-r--r-- root/root     99943 2021-09-30 12:45 ./usr/share/tipp/tippJsonMerger.jar

Timestamp: 30.09.2021 / 14:11:03 (UTC)