Le 12/29/11 7:08 PM, Justin B Rye a écrit : > Christian PERRIER wrote: >> Template: biomaj/jdk_home >> Type: string >> +_Description: JDK home directory: >> + Please enter the directory where the Java Development Kit, >> + which is used by BioMAJ, is installed. > That's European-style relative clause punctuation. You want: > > Please specify the directory where the Java Development Kit > which is used by BioMAJ is installed. > > Or, since the place where it's installed is the place where it is, > simplify to: > > Please specify the path to the Java Development Kit for BioMAJ. > >> Give more details. I however wonder why this has to be >> configured. Shouldn't the package depends on a JDK and therefore >> "know" where it is installed? > It does have a "Depends: openjdk-6-jdk|default-jdk|sun-java6-jdk", so > yes, this sounds like a job for policy and/or $JAVA_HOME. In fact, JDK path is required somewhere in configuration files, that's why question is asked, even if jdk dependency is set. > >> Template: biomaj/mysql >> Type: boolean >> +_Description: Configure MySQL connection now? >> + Please choose whether you want to configure connection >> + parameters for the BioMAJ MySQL database. >> + . >> + Please note that the database has to be created and configured >> + before it can be used. >> >> Use "BioMAJ" as this seems to be the "official" way to write the >> software name? > Upstream seem to think so. I notice there's a bit more information in > the revised version, but it's still rather unclear to me exactly what > it is that needs to happen first or what this allows to happen second. > > Candidates for both include: > a) the package mysql-server-x.y being fully installed > b) a "biomaj_log" database and dbadmin being created > c) the connection parameters being set up via debconf > d) BioMAJ being configured to populate the database automatically > > I'm guessing that (a) is a prerequisite for (c) which gives you (d), > but is doing (b) also a prerequisite or is it automated?
(a) is a prerequisite For automation, (b) and (c) are required for (d). If (b) or (c) is not satistifed, then database population has to be done manually after package installation. > Maybe: > > Once the MySQL database for BioMAJ has been created and configured, it > can populate itself automatically instead of needing to be updated > manually. > . > Please specify whether the database connection should be configured now. > >> Template: biomaj/mysql_host > [...] >> Template: biomaj/mysql_login > [...] >> Template: biomaj/mysql_passwd > These look good. > >> Package: biomaj > [...] >> +Description: biological banks updater > The top hits for "biological banks" are all talking about tissue > sample repositories. What you mean is > > Description: biological data-bank updater Correct > >> + BioMAJ downloads remote data banks, checks their status and applies >> transformation >> + workflows, with consistent state, to provide ready-to-use data to >> biologists and >> bioinformaticians. For example, it can transform original fasta files to >> blast >> indexes. It is very flexible and post-processes can be extended very >> easily. >> >> No leading uppercase in synopsis. >> >> Some grammar corrections. > Better, but: s/fasta/FASTA/, s/blast/BLAST/ (not to be confused with > the Debian package "blast"), and I'm not sure about "post-processes" - > maybe "its post-processing facilities"? Post-processing sounds better indeed. The software execute some programs, defined in a property file, after the download of the data. Those programs are referred here as the "post-processes". > > BioMAJ downloads remote data banks, checks their status and applies > transformation workflows, with consistent state, to provide ready-to-use > data for biologists and bioinformaticians. For example, it can transform > original FASTA files into BLAST indexes. It is very flexible and its > post-processing facilities can be extended very easily. > >> Package: biomaj-properties > [...] >> Description: bank properties file examples > Even worse - "bank properties" means land owned by financial > institutions... > > Description: biological data-bank updater - example properties files > >> This package contains a set of bank properties that can be used as >> + examples for BioMAJ. It contains many existing banks descriptions >> + with or without workflows to transform data. Some files may require >> + additional programs for post-processes such as blast. > A couple of extra tweaks (for instance, they're existing data banks, > not existing descriptions): > > This package contains a set of data bank properties files that can be > used as examples for BioMAJ. It contains descriptions for many existing > data banks with or without workflows to transform data. Some files may > require additional programs (such as BLAST) for post-processing. > > > > _______________________________________________ > Debian-med-packaging mailing list > debian-med-packag...@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging -- Olivier Sallou IRISA / University of Rennes 1 Campus de Beaulieu, 35000 RENNES - FRANCE Tel: 02.99.84.71.95 gpg key id: 4096R/326D8438 (pgp.mit.edu) Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438