rewrite installer

[epruesse]

The install script should:

• display license
• check for dependencies, install if possible, present help if not
• ask for system wide or install
• ask for paths
  1. system
     • BIN=/usr/local/bin
     • ARBHOME=/opt/arb-$VERSION
     • CACHE=$ARBHOME/cache
  2. 
     • BIN=$HOME/bin
       • ask && update .bashrc/.cshrc/.profile if $BIN not in $PATH
     • ARBHOME=$HOME/arb-$VERSION
     • CACHE=NONE (we have .arb_pts)
• check for previous install
  • if previous arb_tcp.dat != arb_tcp_orig.dat
    • ask whether to keep
    • show diff
• copy . to $ARBHOME
• create symlink in $BIN
• adapt arb_tcp.dat
• print welcome/help

Optionally: use makeself.sh to build self-extracting package.

[westram]

Another (related?) wanna-have:

• double-clicking on xxx.arb in system file-browser (nautilus, …) should run
  arb xxx.arb

[epruesse]

Replying to westram:

Another (related?) wanna-have:

• double-clicking on xxx.arb in system file-browser (nautilus, …) should run
  arb xxx.arb

For that, we need to do the following:

1. Add a mime-type. Those are defined with small XML files. The following should work:

   <?xml version="1.0" encoding="UTF-8"?>
   <mime-info xmlns="http://www.freedesktop.org/standards/shared-mime-info">
      <mime-type type="application/x-arb">
        <comment>ARB database file</comment>
        <magic priority="50">
          <match value="this is the binary version of the gbtum data file version" type="string" offset="6"/>
        </magic>
        <glob pattern="*.arb"/>
      </mime-type>
   </mime-info>
   

   This file needs to be installed with xdg-mime install --no-vendor arb.xml. The no-vendor is because we should have a "vendor" name in theory. As in "sun-java".
2. Then we need to register the application using a .desktop file, which could look like this:

   [Desktop Entry]
   Name=ARB
   Encoding=UTF-8
   Exec=arb %f
   Icon=arb
   Type=Application
   Categories=GTK;Science;Biology
   Terminal=false
   Comment=Describe ARB here
   MimeType=application/x-arb
   

   This is installed with xdg-desktop-icon install --novendor arb.desktop to the desktop and with xdg-desktop-menu install --novendor arb.desktop to the menu.
3. The icons for the .desktop file and the mime type are installed with xdg-icon-resource install --size 128 arb.png and xdg-icon-resource install --context mimetypes --size 128 arb-128.png application-x-arb, where 128 should be 48/64/128/scaleable and the icon matching.
4. Create ARB launcher and File-Type icons…

[epruesse]

Hmm. While we're at it, we could register ARB as default handler for .fasta, .phylip, .gb, .embl, . and .newick. A bit of Perl to find the youngest running ARB and navigate to the import menu should do the trick…