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lagan_2.0-2_amd64.changes (click to toggle)
Format:1.8
Date:Fri, 07 Sep 2018 14:10:07 +0200
Source:lagan
Binary:lagan
Architecture:source amd64
Version:2.0-2
Distribution:experimental
Urgency:low
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By:Steffen Moeller <moeller@debian.org>
Description:
lagan      - highly parametrizable pairwise global genome sequence aligner
Closes:908215
Changes:
lagan (2.0-2) experimental; urgency=low

  * Initial release to experimental to invite peer review (Closes: #908215).
  * Added man page for mlagan, also added *.pl scripts to /usr/bin
  * Added embarrassingly simple test routine to run "mlagan -h"
  * Solved compile time "ambiguity" error
  * d/control:
    - Bumped policy to 4.2.1
    - Adjusted URLs to repository
  * d/changelog: updated GSF address
  * lintian overrides for .pl endings
Files:
7f420e208a7d289583f8b83d14154724 1952 science optional lagan_2.0-2.dsc
7027ba63a2a5115871b85e205aa36bb7 192945 science optional lagan_2.0.orig.tar.gz
6a141818f3a8cf70749463f54926d1ef 5344 science optional lagan_2.0-2.debian.tar.xz
8490f3340895e96deab7fed8bd9b1da0 24404 debug optional lagan-dbgsym_2.0-2_amd64.deb
56255a4e03bb7111fde3cf9de5dead7b 6257 science optional lagan_2.0-2_amd64.buildinfo
a76b3acf52cf33844d305f7d349e288d 180780 science optional lagan_2.0-2_amd64.deb
lagan_2.0-2.dsc (click to toggle)
Format:3.0 (quilt)
Source:lagan
Binary:lagan
Architecture:any
Version:2.0-2
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:Andreas Tille <tille@debian.org>, Steffen Moeller <moeller@debian.org>
Homepage:http://lagan.stanford.edu/lagan_web/index.shtml
Standards-Version:4.2.1
Vcs-Browser:https://salsa.debian.org/med-team/lagan
Vcs-Git:https://salsa.debian.org/med-team/lagan.git
Build-Depends:debhelper (>=10), libboost-dev
Package-List:lagan deb science optional arch=any
Files:
7027ba63a2a5115871b85e205aa36bb7 192945 lagan_2.0.orig.tar.gz
6a141818f3a8cf70749463f54926d1ef 5344 lagan_2.0-2.debian.tar.xz
lintian check for lagan_2.0-2.dsc (click to toggle)
README.source for lagan_2.0-2.dsc (click to toggle)
No README.source in this package
control file for lagan_2.0-2_amd64.deb (click to toggle)
Package:lagan
Version:2.0-2
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:812
Depends:libc6 (>=2.14), libgcc1 (>=1:3.0), libstdc++6 (>=5.2)
Section:science
Priority:optional
Homepage:http://lagan.stanford.edu/lagan_web/index.shtml
Description:
highly parametrizable pairwise global genome sequence aligner
 Lagan takes local alignments generated by CHAOS as anchors, and limits
 the search area of the Needleman-Wunsch algorithm around these anchors.
 .
 Multi-LAGAN is a generalization of the pairwise algorithm to multiple
 sequence alignment.  M-LAGAN performs progressive pairwise alignments,
 guided by a user-specified phylogenetic tree. Alignments are aligned to
 other alignments using the sum-of-pairs metric.
lintian check for lagan_2.0-2_amd64.deb (click to toggle)
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/anal_gloc.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/lagan.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/rechaos.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/slagan-mfa.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/slagan.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/supermap.pl
N: Not messing with whatever defaults the community has already
N: established for maximal compatibility with existing scripts.
O: lagan: script-with-language-extension usr/bin/xmfa2mfa.pl
O: lagan: binary-without-manpage usr/bin/anal_gloc.pl
O: lagan: binary-without-manpage usr/bin/anchors
O: lagan: binary-without-manpage usr/bin/chaos
O: lagan: binary-without-manpage usr/bin/glocal
O: lagan: binary-without-manpage usr/bin/lagan.pl
O: lagan: binary-without-manpage usr/bin/order
O: lagan: binary-without-manpage usr/bin/prolagan
O: lagan: binary-without-manpage usr/bin/rechaos.pl
O: lagan: binary-without-manpage usr/bin/slagan-mfa.pl
O: lagan: binary-without-manpage usr/bin/slagan.pl
O: lagan: binary-without-manpage usr/bin/supermap.pl
O: lagan: binary-without-manpage usr/bin/xmfa2mfa.pl
W: lagan: script-not-executable usr/lib/lagan/utils/flipchaos.pl
contents of lagan_2.0-2_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2018-09-07 12:10 ./
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/bin/
-rwxr-xr-x root/root      3110 2018-09-07 12:10 ./usr/bin/anal_gloc.pl
-rwxr-xr-x root/root     18688 2018-09-07 12:10 ./usr/bin/anchors
-rwxr-xr-x root/root     51688 2018-09-07 12:10 ./usr/bin/chaos
-rwxr-xr-x root/root     55904 2018-09-07 12:10 ./usr/bin/glocal
-rwxr-xr-x root/root      6255 2018-09-07 12:10 ./usr/bin/lagan.pl
-rwxr-xr-x root/root     59864 2018-09-07 12:10 ./usr/bin/mlagan
-rwxr-xr-x root/root     35208 2018-09-07 12:10 ./usr/bin/order
-rwxr-xr-x root/root     63952 2018-09-07 12:10 ./usr/bin/prolagan
-rwxr-xr-x root/root      9417 2018-09-07 12:10 ./usr/bin/rechaos.pl
-rwxr-xr-x root/root      1146 2018-09-07 12:10 ./usr/bin/slagan-mfa.pl
-rwxr-xr-x root/root      5266 2018-09-07 12:10 ./usr/bin/slagan.pl
-rwxr-xr-x root/root     72331 2018-09-07 12:10 ./usr/bin/supermap.pl
-rwxr-xr-x root/root      1642 2018-09-07 12:10 ./usr/bin/xmfa2mfa.pl
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/lib/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/lib/lagan/
-rw-r--r-- root/root      1899 2018-09-07 11:20 ./usr/lib/lagan/blosum62.txt
-rw-r--r-- root/root      3003 2018-09-07 11:20 ./usr/lib/lagan/blosum62s.txt
-rw-r--r-- root/root       234 2018-09-07 11:20 ./usr/lib/lagan/nucmatrix.txt
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/lib/lagan/utils/
-rwxr-xr-x root/root     47664 2018-09-07 12:10 ./usr/lib/lagan/utils/Glue
-rw-r--r-- root/root     12736 2018-09-07 12:10 ./usr/lib/lagan/utils/Utils.pm
-rwxr-xr-x root/root     14584 2018-09-07 12:10 ./usr/lib/lagan/utils/bin2bl
-rwxr-xr-x root/root     14496 2018-09-07 12:10 ./usr/lib/lagan/utils/bin2mf
-rwxr-xr-x root/root     14576 2018-09-07 12:10 ./usr/lib/lagan/utils/cextract
-rwxr-xr-x root/root      7056 2018-09-07 12:10 ./usr/lib/lagan/utils/cmerge2.pl
-rwxr-xr-x root/root     22752 2018-09-07 12:10 ./usr/lib/lagan/utils/contigorder
-rwxr-xr-x root/root     18696 2018-09-07 12:10 ./usr/lib/lagan/utils/cstat
-rwxr-xr-x root/root     14504 2018-09-07 12:10 ./usr/lib/lagan/utils/dotplot
-rwxr-xr-x root/root      7749 2018-09-07 12:10 ./usr/lib/lagan/utils/draft.pl
-rwxr-xr-x root/root     14584 2018-09-07 12:10 ./usr/lib/lagan/utils/fa2xfa
-rw-r--r-- root/root       326 2018-09-07 12:10 ./usr/lib/lagan/utils/flipchaos.pl
-rwxr-xr-x root/root     14520 2018-09-07 12:10 ./usr/lib/lagan/utils/getbounds
-rwxr-xr-x root/root     14568 2018-09-07 12:10 ./usr/lib/lagan/utils/getcontigpos
-rwxr-xr-x root/root     14504 2018-09-07 12:10 ./usr/lib/lagan/utils/getlength
-rwxr-xr-x root/root     14488 2018-09-07 12:10 ./usr/lib/lagan/utils/getoverlap
-rwxr-xr-x root/root      1839 2018-09-07 12:10 ./usr/lib/lagan/utils/mextract.pl
-rwxr-xr-x root/root      1617 2018-09-07 12:10 ./usr/lib/lagan/utils/mf2bin.pl
-rwxr-xr-x root/root      4887 2018-09-07 12:10 ./usr/lib/lagan/utils/mpretty.pl
-rwxr-xr-x root/root      1319 2018-09-07 12:10 ./usr/lib/lagan/utils/mproject.pl
-rwxr-xr-x root/root      6224 2018-09-07 12:10 ./usr/lib/lagan/utils/mrun.pl
-rwxr-xr-x root/root      1783 2018-09-07 12:10 ./usr/lib/lagan/utils/mrunfile.pl
-rwxr-xr-x root/root      6038 2018-09-07 12:10 ./usr/lib/lagan/utils/mrunpairs.pl
-rwxr-xr-x root/root      1825 2018-09-07 12:10 ./usr/lib/lagan/utils/msplit.pl
-rwxr-xr-x root/root      5067 2018-09-07 12:10 ./usr/lib/lagan/utils/mviz.pl
-rwxr-xr-x root/root     14584 2018-09-07 12:10 ./usr/lib/lagan/utils/overlay
-rwxr-xr-x root/root     14536 2018-09-07 12:10 ./usr/lib/lagan/utils/rc
-rwxr-xr-x root/root     22840 2018-09-07 12:10 ./usr/lib/lagan/utils/scorealign
-rwxr-xr-x root/root     22848 2018-09-07 12:10 ./usr/lib/lagan/utils/scorecontigs
-rwxr-xr-x root/root     14520 2018-09-07 12:10 ./usr/lib/lagan/utils/seqmerge
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/doc/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/doc/lagan/
-rw-r--r-- root/root      3832 2018-09-07 11:20 ./usr/share/doc/lagan/README.FIRST
-rw-r--r-- root/root      3569 2018-09-07 11:20 ./usr/share/doc/lagan/README.chaos.gz
-rw-r--r-- root/root      2929 2018-09-07 11:20 ./usr/share/doc/lagan/README.lagan
-rw-r--r-- root/root      2982 2018-09-07 11:20 ./usr/share/doc/lagan/README.mlagan
-rw-r--r-- root/root      2681 2018-09-07 11:20 ./usr/share/doc/lagan/README.shuffle
-rw-r--r-- root/root      2858 2018-09-07 11:20 ./usr/share/doc/lagan/README.tools.gz
-rw-r--r-- root/root       552 2018-09-07 12:10 ./usr/share/doc/lagan/changelog.Debian.gz
-rw-r--r-- root/root      1203 2018-09-07 12:10 ./usr/share/doc/lagan/copyright
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/doc/lagan/examples/
-rw-r--r-- root/root      1218 2018-09-07 11:20 ./usr/share/doc/lagan/examples/sample.fasta
-rw-r--r-- root/root       961 2018-09-07 11:20 ./usr/share/doc/lagan/examples/sample.params
-rw-r--r-- root/root       177 2018-09-07 11:20 ./usr/share/doc/lagan/examples/test.score
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/lintian/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/lintian/overrides/
-rw-r--r-- root/root      1102 2018-09-07 12:10 ./usr/share/lintian/overrides/lagan
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/man/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/man/man1/
-rw-r--r-- root/root       752 2018-09-07 12:10 ./usr/share/man/man1/mlagan.1.gz
control file for lagan-dbgsym_2.0-2_amd64.deb (click to toggle)
Package:lagan-dbgsym
Source:lagan
Version:2.0-2
Auto-Built-Package:debug-symbols
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:220
Depends:lagan (=2.0-2)
Section:debug
Priority:optional
Description:
debug symbols for lagan
Build-Ids:03aca527fdc1dbf7fd47a3907c7e49537445c1a4 064010de17df365e9fb093c429b6497be1219354 0df7aeceafd2935418cf29cb12d7bb9ef336c0cc 183dfa3cb7c26718b51563d60f392fd209bb67a9 1b4f8263b6c494a69bb0474efb859c6d2ef29c8d 20a308115bb4936958c9e8c88bd3454016ed529a 40a5f1a3ef064d9db2418bc2068abab00fd0dfc9 42c3f2f598157605a643c3cca0ad05aa348f7201 44867e043e12ea9c0c853290853f05ec6e3a90b8 4b8f9e55a5806091a92b595c85d5012f0539b031 5dba95b04fa07cb17687e06e251183297ca69304 69bd65e8c66d85694e102f6558164a6481edb8b9 73fa36af78a06eca79b5d89a94d967e1b08276ab 7a8ffcf7d44a85568da74f3896fe57df7ffdc163 86b0b35b8fa6daf80bb4a5fa19af2204094155b8 969f86bbd5d7e811fd33404d84d7bf9b511f3b39 a171e6b3400cfa0a47197af8c12ca556bbcca1f0 ae6f7e8eb4662665cf99961046f0d567cd4615d5 bb32503858beb62920851b7adc91518c007d4abd c8df1258b230dabe3cd020475e5f0e896e3a378f d02b9f5d5f931e54ae2778f8ecd43e1db48f935a e51616157f232d4d55e4c3f37c6cfbf9fb04d894 fc4486d2cb57fc7480419ab84c712aae76fcdff0
lintian check for lagan-dbgsym_2.0-2_amd64.deb (click to toggle)
W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/03/aca527fdc1dbf7fd47a3907c7e49537445c1a4.debug
W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/06/4010de17df365e9fb093c429b6497be1219354.debug
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W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/18/3dfa3cb7c26718b51563d60f392fd209bb67a9.debug
W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/1b/4f8263b6c494a69bb0474efb859c6d2ef29c8d.debug
W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/20/a308115bb4936958c9e8c88bd3454016ed529a.debug
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W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/42/c3f2f598157605a643c3cca0ad05aa348f7201.debug
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W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/96/9f86bbd5d7e811fd33404d84d7bf9b511f3b39.debug
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W: lagan-dbgsym: debug-file-with-no-debug-symbols usr/lib/debug/.build-id/fc/4486d2cb57fc7480419ab84c712aae76fcdff0.debug
contents of lagan-dbgsym_2.0-2_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2018-09-07 12:10 ./
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/
drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/lib/
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drwxr-xr-x root/root         0 2018-09-07 12:10 ./usr/share/doc/
lrwxrwxrwx root/root         0 2018-09-07 12:10 ./usr/share/doc/lagan-dbgsym -> lagan

Timestamp: 07.09.2018 / 14:11:13 (UTC)