[Debian-med-packaging] Bug#609038: ITP: biomaj -- a biological databank update and processing tool

Charles Plessy plessy at debian.org
Fri Jan 7 14:18:23 UTC 2011

Le Fri, Jan 07, 2011 at 11:22:29AM +0100, Olivier Sallou a écrit :
> Hi,
> my package is ready and uploaded to mentors.
> I removed most of lintian warnings.

Dear Olivier,

here are a couple of quick random superficial comments. My goal is not to
hammer you; do not hesitate to ask questions or help !

 - Is it possible to move executable programs out from /etc ?

 - NCBI blast is distributed by Debian, you can update the paths to formatdb
   and other programs accordingly, and make biomaj depend on blast2
   accordingly. We also distribute readseq; you can depend or recommend it
   if needed.

 - UTF-8 is the default encoding in Debian; there are some non-UTF-8 characters
   in etc/biomaj/db_properties/alu.properties and perhaps other files.

 - Debian considers that PDF documents are not free software if their source
   are not provided in the same package…

 - To find which Debian Java packages already provide some of the jars that are
   currently in usr/share/biomaj/lib, you can use the command ‘apt-file’:

     $ apt-file search commons-dbcp.jar
     libcommons-dbcp-java: /usr/share/java/commons-dbcp.jar
     tomcat6-common: /usr/share/tomcat6/lib/commons-dbcp.jar

 - You can annotate the purpose of debian/patches/debian-changes-1.1.0-1
   following the guidelines of the Debian Enhancement Proposal number 3

 - Most files except debian/rules in the debian directory do not need to be

 - The empty files debian/conffiles and debian/fichier can probably be removed.


Charles Plessy
Debian Med packaging team,
Tsurumi, Kanagawa, Japan

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