[baohua100]

Two questions about this program -
1) will it handle 454 reads and contigs, please?
2) running it on Ubuntu 8.04 gave the following error messages:

** (MapView.exe:19020): WARNING **: The following assembly referenced from ~/backup/MapView.exe could not be loaded:
Assembly: System.Windows.Forms (assemblyref_index=0)
Version: 2.0.0.0
Public Key: b77a5c561934e089
The assembly was not found in the Global Assembly Cache, a path listed in the MONO_PATH environment variable, or in the location of the executing assembly (~/backup/).

** (MapView.exe:19020): WARNING **: Could not load file or assembly 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089' or one of its dependencies.

** (MapView.exe:19020): WARNING **: Missing method EnableVisualStyles in assembly ~/backup/MapView.exe, type System.Windows.Forms.Application

Unhandled Exception: System.IO.FileNotFoundException: Could not load file or assembly 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089' or one of its dependencies.
File name: 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089'

I presume this is a Mono issue? I have not used Mono or .NET before. Thank you!

For solexa reads only.

[habm]

Two questions about this program -
1) will it handle 454 reads and contigs, please?
2) running it on Ubuntu 8.04 gave the following error messages:

** (MapView.exe:19020): WARNING **: The following assembly referenced from ~/backup/MapView.exe could not be loaded:
Assembly: System.Windows.Forms (assemblyref_index=0)
Version: 2.0.0.0
Public Key: b77a5c561934e089
The assembly was not found in the Global Assembly Cache, a path listed in the MONO_PATH environment variable, or in the location of the executing assembly (~/backup/).

** (MapView.exe:19020): WARNING **: Could not load file or assembly 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089' or one of its dependencies.

** (MapView.exe:19020): WARNING **: Missing method EnableVisualStyles in assembly ~/backup/MapView.exe, type System.Windows.Forms.Application

Unhandled Exception: System.IO.FileNotFoundException: Could not load file or assembly 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089' or one of its dependencies.
File name: 'System.Windows.Forms, Version=2.0.0.0, Culture=neutral, PublicKeyToken=b77a5c561934e089'

I presume this is a Mono issue? I have not used Mono or .NET before. Thank you!

[WJW-Davy]

MapView 3.4.1 for Windows and Linux

Download link1: https://sites.google.com/site/wjwdav...attredirects=0

3.4.1 [2009.6.5]
Coverage analysis (Statistics->Coverage Distribution) changed in order to avoid "Unhandled Exception" on Linux.

[WJW-Davy]

Hi, Fabio
Thank you for your message.
I have tested three files on Windows about "Coverage Distribution". All of them were OK.
But on linux, two of them were OK and another one got "Unhandled Exception" after the list had shown.

The "Unhandled Exception" on Linux about "Coverage Distribution" confused me. I will try to do coverage analysis on linux in another way.

[mikyatope]

^ Indeed, it was GDIplus , thanks !

[WJW-Davy]

I got this error with mono and MapView in a CentOS5

Unhandled Exception: System.TypeInitializationException: An exception was thrown by the type initializer for System.Windows.Forms.XplatUI ---> System.TypeInitializationException: An exception was thrown by the type initializer for System.Drawing.GDIPlus ---> System.DllNotFoundException: gdiplus.dll
  at (wrapper managed-to-native) System.Drawing.GDIPlus:GdiplusStartup (ulong&,System.Drawing.GdiplusStartupInput&,System.Drawing.GdiplusStartupOutput&)
  at System.Drawing.GDIPlus..cctor () [0x00000] --- End of inner exception stack trace ---

  at <0x00000> <unknown method>
  at System.Drawing.Graphics.FromHdcInternal (IntPtr hdc) [0x00000] 
  at System.Windows.Forms.XplatUIX11.SetDisplay (IntPtr display_handle) [0x00000] 
  at System.Windows.Forms.XplatUIX11..ctor () [0x00000] 
  at System.Windows.Forms.XplatUIX11.GetInstance () [0x00000] 
  at System.Windows.Forms.XplatUI..cctor () [0x00000] --- End of inner exception stack trace ---

  at <0x00000> <unknown method>
  at System.Windows.Forms.Application.EnableVisualStyles () [0x00000] 
  at bQ9Wqc5Z49HhsqC7GB.VjrqIScir9R7qjLxc1.kAuOsLUbQ (System.String[] ) [0x00000]

its a mono or a mapview issue ?
thanks!

The important part:
System.Drawing.GDIPlus ---> System.DllNotFoundException: gdiplus.dll
at (wrapper managed-to-native) System.Drawing.GDIPlus:GdiplusStartup (ulong&,System.Drawing.GdiplusStartupInput&,System.Drawing.GdiplusStartupOutput&)

I think your system or mono need GDIPlus.

[mikyatope]

I got this error with mono and MapView in a CentOS5

Unhandled Exception: System.TypeInitializationException: An exception was thrown by the type initializer for System.Windows.Forms.XplatUI ---> System.TypeInitializationException: An exception was thrown by the type initializer for System.Drawing.GDIPlus ---> System.DllNotFoundException: gdiplus.dll
  at (wrapper managed-to-native) System.Drawing.GDIPlus:GdiplusStartup (ulong&,System.Drawing.GdiplusStartupInput&,System.Drawing.GdiplusStartupOutput&)
  at System.Drawing.GDIPlus..cctor () [0x00000] --- End of inner exception stack trace ---

  at <0x00000> <unknown method>
  at System.Drawing.Graphics.FromHdcInternal (IntPtr hdc) [0x00000] 
  at System.Windows.Forms.XplatUIX11.SetDisplay (IntPtr display_handle) [0x00000] 
  at System.Windows.Forms.XplatUIX11..ctor () [0x00000] 
  at System.Windows.Forms.XplatUIX11.GetInstance () [0x00000] 
  at System.Windows.Forms.XplatUI..cctor () [0x00000] --- End of inner exception stack trace ---

  at <0x00000> <unknown method>
  at System.Windows.Forms.Application.EnableVisualStyles () [0x00000] 
  at bQ9Wqc5Z49HhsqC7GB.VjrqIScir9R7qjLxc1.kAuOsLUbQ (System.String[] ) [0x00000]

its a mono or a mapview issue ?
thanks!

[fabio.marroni]

I am using MapView 3.4.0 on Ubuntu 9.04 using mono. It runs fine for almost everything, but as soon I try to run the coverage analysis (Statistics->Coverage Distribution) the program crashes with the following message:

  Unhandled Exception: System.IndexOutOfRangeException: Array index is out of range.
  at System.Windows.Forms.ListView.GetItemLocation (Int32 index) [0x00000] 
  at System.Windows.Forms.ListView.get_LastVisibleIndex () [0x00000] 
  at (wrapper remoting-invoke-with-check) System.Windows.Forms.ListView:get_LastVisibleIndex ()
  at System.Windows.Forms.ThemeWin32Classic.DrawListViewItems (System.Drawing.Graphics dc, Rectangle clip, System.Windows.Forms.ListView control) [0x00000] 
  at System.Windows.Forms.ListView+ItemControl.OnPaintInternal (System.Windows.Forms.PaintEventArgs pe) [0x00000] 
  at System.Windows.Forms.Control.WmPaint (System.Windows.Forms.Message& m) [0x00000] 
  at System.Windows.Forms.Control.WndProc (System.Windows.Forms.Message& m) [0x00000] 
  at System.Windows.Forms.ListView+ItemControl.WndProc (System.Windows.Forms.Message& m) [0x00000] 
  at System.Windows.Forms.Control+ControlWindowTarget.OnMessage (System.Windows.Forms.Message& m) [0x00000] 
  at System.Windows.Forms.Control+ControlNativeWindow.WndProc (System.Windows.Forms.Message& m) [0x00000] 
  at System.Windows.Forms.NativeWindow.WndProc (IntPtr hWnd, Msg msg, IntPtr wParam, IntPtr lParam) [0x00000] 
  at System.Windows.Forms.XplatUIX11.DispatchMessage (System.Windows.Forms.MSG& msg) [0x00000] 
  at System.Windows.Forms.XplatUI.DispatchMessage (System.Windows.Forms.MSG& msg) [0x00000] 
  at System.Windows.Forms.Application.RunLoop (Boolean Modal, System.Windows.Forms.ApplicationContext context) [0x00000] 
  at System.Windows.Forms.Application.Run (System.Windows.Forms.ApplicationContext context) [0x00000] 
  at System.Windows.Forms.Application.Run (System.Windows.Forms.Form mainForm) [0x00000] 
  at bQ9Wqc5Z49HhsqC7GB.VjrqIScir9R7qjLxc1.kAuOsLUbQ (System.String[] ) [0x00000]

Can you help with this issue?
Thank you very much
Fabio

[WJW-Davy]

MapView 3.4.0
Download: https://sites.google.com/site/wjwdav...attredirects=0

3.4.0 [2009.6.1]
Run on Linux (e.g. Ubuntu 9) successfully.
Some bugs were fixed.

[cdf]

Special thanks to Cristian!
MapView 3.4.0 Beta3 is running on Linux (Ubuntu 9.04) successfully.
After some changes and tests, I will release MapView 3.4.0 asap.

You're welcome!

I wait for the new version to test it!

Best regards,
Cristian

[WJW-Davy]

Special thanks to Cristian!
MapView 3.4.0 Beta3 is running on Linux (Ubuntu 9.04) successfully.
After some changes and tests, I will release MapView 3.4.0 asap.

[baohua100]

Run Mapview on Linux (Ubuntu) using Mono. Its' fine!

[baohua100]

Thanks. I wonder if I can combine visualize 2 lanes in the same time. I have input and control and I do the splitter for each of the input and control. Can I visualize both of them in the same time

You should combine the alignment output files fisrt. Then you can make MVF file.

[WJW-Davy]

Fast answer, great! :-D

I must wait for a new version on the main site or can you give me a patched file to test it?

Many thanks,
Cristian

Hi,Cristian
After replying that post, I went to make some changes about MapView. Sorry for not noticing your lastest post.
Thank you very much for testing MapView on Linux.
Here is the beta version :

https://sites.google.com/site/wjwdavymapview/mapview/MapView.7z?attredirects=0

added a command line parameter "-high".
MapView's default ProcessPriority is Normal.
But when start it with parameter:
MapView -high
MapView will try to gain priority to be high.

[cdf]

Hi,Cristian

Thank you for your message.

I will add a command line parameter to change the process priority.

WJW-Davy

Fast answer, great! :-D

I must wait for a new version on the main site or can you give me a patched file to test it?

Many thanks,
Cristian