I have problem with uploading using arduino bootloader from studio (e.g. F5 button). It seems the avrdude does not start - no "avrdude" output texts on the bottom. 
Just "Uploading to I/O board using 'COM......", thats all.
When I select "Upload using programer", eg. Usbasp, it works correctly.

The problem is NOT in the board, wrong COM port, bootloader, etc. The same configuration works in Arduino IDE.

The Visual Micro installed on AtmelStudio 6.1.2562 running Win7 x64.

I trided to remove related keys from registry, reinstall studio, Visual Micro addon - the problem persists.

Any idea?

I tried Arduino 1.0.5 and 1.0.4.
Board Arduino Nano with 328.
I wrote small app sending text. I selected the correct port in Serial Monitor and baudrate - the output seems OK.
If I try to upload code from AtmelStudio during the Serial Monitor is open (the comm. port is connected), an unexcepted error occurred during uploading "Object reference not set to an instance of an object".

Yes, it is strange.

The Micro debug is set to None.

I found the same problem in this thread:
http://www.visualmicro.com/forums/YaBB.pl?num=1359316821

No, I do not have any problems with COM port enumeration, wrong drivers or cables. The device works with many tools.

The main issue is with uploading using standard bootloader, see the output:

Binary sketch size: 466 bytes (2% of a 30720 byte maximum) (0,21 secs)
Uploading to I/O board using 'COM1' 

Thats all. If I change to "using programmer", it works, see:

Binary sketch size: 466 bytes (2% of a 30720 byte maximum) (0,28 secs)
Uploading to I/O board using 'usbasp'
"c:\arduino\hardware\tools\avr\bin/avrdude" -C"c:\arduino\hardware/tools/avr/etc/avrdude.conf" -v -v -v -v -patmega328p -cusbasp -Pusb a.hex":i
Done uploading 

Thanks, it will be interesting to get to the bottom of it. The win7 problem isn't normal that's for sure.

EDIT Thanks for this. What path have you entered in tools>options>visual Micro>Arduino location

Well you are right, if avrdude.exe is not being executed then this is nothing to do with usb. I have never seen this issue before. 

We see the program is compiled correctly but then the upload does not start.

Do you have any custom hardware under the sketchBook folder? [SketchBook\Hardware]

??

Thanks, yes can see compile is fine because we get a size back.

Can you please confirm that "Tools>Options>Visual Micro>Tool chain Locations>Avr" is empty. 

If it is then we will have to have more diagnostics in the next version to see why we never get to the upload. 

You definitely do not have "Tools>Arduino>Upload using programmer" ticked?

Thanks

I am at a loss and will add some more diagnostics for the next release.

As a long shot I installed arduino into exactly the same location tools\arduino but it still works. I can not break it.

There is nothing in the code that causes the upload to be ignored/skipped and avrdude should run immediately after the "Uploading to port" message.

We see a full compile and program size report so we know that the tools folder is being located correctly.

I am sorry you have this problem, thanks for so much patience and great reporting. I will continue to give it some thought.

Thanks for the sketch and build output, it is very useful. Something strange is going on and I think the best solution is to validate your Visual Micro install, delete the auto created atmel and visual micro files and try again.

Please do this ...

1) Install Visual Micro 1305.21 from http://visualmicro.codeplex.com > DOWNLOADS>Visual Micro Arduino - Beta Channel

2) Delete all files and sub folders of the "jjj" sketch except your own sources (jjj.ino)

3) Delete the VMIRCO temp folder

4) Re-open the jjj and try to upload

Then please send me the output again. 

Thanks very much