GMV is a comparative genome browser for Murasaki. GMV visualizes
anchors from Murasaki, annotation data from
[[GenBank>http://www.ncbi.nlm.nih.gov/Genbank/]] files, and expression
/ prediction score from
[[GFF>http://www.sanger.ac.uk/Software/formats/GFF/]] files.

GMV works on any platform which has GTK+-2.10 or later. Currently, MacOS X, FreeBSD and Linux are supported. Also, experimental build for Microsoft Windows is available.

* News [#j6c99181]
* News [#a3e389d3]

- Oct.03, 2009
-- New GMV release (1e-94) has been released.
-- [[tmurasakix:http://kurigw.ci.seikei.ac.jp/osana/tmurasakix.html]] support.
- Mar.03, 2009
-- New GMV release (1e-95) has been released.
-- For MacOS X users, new GTK+ package is required. X11.app is no longer required.
- Feb.24, 2009
-- New GMV snapshot is finally available!!
-- For MacOS X users, new GTK+ package is required. This snapshot with the new GTK package don't require X11.app to run.
- Aug.30, 2008
-- New GMV snapshot available.
-- MacOS X binary update: Please update your GTK+ installation! (latest binary package available here is Aug.2008 version)
- Jul.09, 2008
-- GMV is now capable to show "Rifts", detected by Murasaki 1.33 and later.

GMV's version number is in exponential form, so I expect 90+ updates before its first production release (1.0)... Maybe 2 or more years.

&aname(download);
* Download GMV [#he6f2c29]
* Download GMV [#adfe10e3]

** License [#j40fa6e0]
** License [#s5dc10da]

GMV is provided under Beerware License. However, binary package for MacOS X is distributed under the GNU General Public License (GPL), since MacOS X package (gmv.app) is based on Platypus. Sample data contains genome sequences from NCBI.

** Download GMV [#y2875f9a]
** Download GMV [#l6315fe8]

Binary downloads are available for MacOS X (10.4 / 10.5) and Windows (2000 and later). Source tarball is available for other platforms.

*** Microbial builds [#re9afcba]
*** Source tarball [#cfb2aba1]

Lower RAM requirement, but length of each sequence is limited up to 2Gbp. Suitable for most microbial genome analysis.
|~ |~Stable Release|~Latest Snapshot|h
|~Source  | &getfile("../gmv/gmv.tar.gz"); | &getfile("../gmv/gmv-snap.tar.gz"); |

|~Platform|~Stable Release|~Latest Snapshot|h
|~MacOS X | &getfile("../gmv/gmv-m.zip"); | &getfile("../gmv/gmv-snap-m.zip"); |
|~Windows | &getfile("../gmv/gmv-m.exe"); | &getfile("../gmv/gmv-snap-m.exe"); |
*** MacOS X package [#j5abcd26]

*** Source & Normal builds [#b2f17a25]
Runs on MacOS X 10.4 (Tiger) and later, including 10.6 (Snow Leopard).

|~Platform|~Stable Release|~Latest Snapshot|h
|~MacOS X | &getfile("../gmv/gmv.zip");    | &getfile("../gmv/gmv-snap.zip"); |
|~Windows | &getfile("../gmv/gmv.exe");    | &getfile("../gmv/gmv-snap.exe"); |
|~Source  | &getfile("../gmv/gmv.tar.gz"); | &getfile("../gmv/gmv-snap.tar.gz"); |
|~Build |~Stable Release|~Latest Snapshot|h
|~Microbial | &getfile("../gmv/gmv-m.zip"); | &getfile("../gmv/gmv-snap-m.zip"); |
|~Largeseq | &getfile("../gmv/gmv.zip"); | &getfile("../gmv/gmv-snap.zip"); |

*** Supplementals [#m9910684]
- GTK+-Quartz package for MacOS X  &getfile("../gmv/GTK+-2.14.7.zip",inline); is required.
- Largeseq build supports 2Gbp+ sequences such as Human genome, and Microbial build has smaller RAM footprint.

- GTK+ package for MacOS X  &getfile("../gmv/GTK+-2.14.7.zip",inline);
- GTK+ package for MacOS X (old: for packages before Dec.2008) &getfile("../gmv/gtk2-2.12.9-Aug2008.zip",inline);

*** Windows package [#i20b1c59]

Runs on Windows 2000, XP and Vista (and maybe on Windows 7).

|~Build |~Stable Release|~Latest Snapshot|h
|~Microbial | &getfile("../gmv/gmv-m.exe"); | &getfile("../gmv/gmv-snap-m.exe"); |
|~Largeseq | &getfile("../gmv/gmv.exe");    | &getfile("../gmv/gmv-snap.exe"); |

- GTK+ package for Windows from [[GTK+ for Windows Runtime>http://sourceforge.net/projects/gtk-win/]] project is required.
- Largeseq build supports 2Gbp+ sequences such as Human genome, and Microbial build has smaller RAM footprint.

*** Supplementals [#xc8b757d]

- Sample data set: &getfile(../gmv/gmv-samples.zip,inline);
- More samples are available in [[GMV Samples]]
-- More samples are available in [[GMV Samples]]
- If you're sticking older GMV for Mac (before Dec.2008), you may need older GTK+ package for MacOS X &getfile("../gmv/gtk2-2.12.9-Aug2008.zip",inline);

** Requirements [#n5f2c694]

- MacOS X (10.4 or later)
-- Latest [[GTK+>http://www.gtk.org]] package
-- Packaged GTK+ is available from the link in "Supplementals" section above. 
- Microsoft Windows (Windows2000, XP and maybe Vista)
-- ''Windows binary may be unstable, sorry...''
-- Requirement: GTK+-2.12.7 package from [[GTK+ for Windows Runtime>http://sourceforge.net/projects/gtk-win/]] project.
--- Download [[GTK+ 2.12.7 package from sourceforge>http://sourceforge.net/project/showfiles.php?group_id=71914&package_id=255391&release_id=561910]]
--- Uninstall any other GTK+ runtime, if you have installed before.
* Build GMV [#r3e03d27]

** Build Instruction [#k144d154]
** Requirements [#l304ee35]

First, make sure you have:
- GNU g++ 4.0 (other C++ compilers may work, but I'm not sure)
- GTK+ 2.10 or later, which can be detected by: pkg-config --modversion gtk+-2.0
- GNU make (BSD make can't build GMV)
- Supported Platforms
-- MacOS X
-- FreeBSD
-- Linux (maybe...) with sufficient version of GTK+.
-- Win32 with Cygwin or MinGW/MSYS (and any cross compiling environments with MiNGW libraries)
- Dependencies:
-- GNU g++ 4.0 (other C++ compilers may work, but I'm not sure)
-- GTK+ 2.10 or later, which can be detected by: pkg-config --modversion gtk+-2.0
--- If you're going to compile with GTK+-Quartz, I recommend 2.14.7.
-- GNU make (BSD make can't build GMV)

** Build it! [#gf22f21a]

Then unpack gmv.tar.gz and edit Gmv.conf.

 $ tar xzf gmv.tar.gz
 $ cd gmv
 $ vi Gmv.conf
Important lines are:
 CC = ccache g++-4.0
 CC_WINDOWS = g++

 # CFLAGS += -DUSE_GLIB_REGEX
Set CC to your C++ compiler (if you're trying to build on MinGW, set CC_WINDOWS instead.) Also, you may have to uncomment CFLAGS += -DUSE_GLIB_REGEX, if your system doesn't have regex.h (I believe most Unix based system have this, but at least, MinGW doesn't.)

Then, just type

 $ make
and you'll get the binary "gmv" in current directory. Move it anywhere you like (maybe somewhere in your PATH) and launch gmv.

To get stripped (and Universal one on MacOS X) binary, type

 $ make RELEASE=yes
Stripped binary will be much smaller (and maybe faster) than normal build.