Mauve installation fails in Windows 8

Question

[Bioblazer]

I hope most of you people aware of Mauve aligner tool.When I tried to install Mauve in my laptop I could not able to install it. I am using Windows 8.1 OS . Whenever I am trying to install it showing Mauve requires java 1.4 or greater but currently I am having most updated one java 8.1(I am not sure about version number). When I surfed on google , another guy had a same issue, he solved by re installation of java. I tried but I failed even though I have uninstalled and again installed both the Java and mauve twice.So anybody solved this issue or know how to solve this ,please suggest me a way to solve it?

[Pierre Lindenbaum]

I tried but I failed

what have you tried ?

[GenoMax]

What is the exact error that you are getting?

[Bioblazer]

Error message in Windows

[GenoMax]

On Windows you would need to go into Control Panel and make sure the variables below are set. Directions to do that are here.

[Bioblazer]

Thank you for your kind reply. I forgot to setup environmental variable last time.I should not asked this(these kind of) silly question on these forum.Sorry. I won't do next time. I will try to ask really meaningful question.

[Pierre Lindenbaum]

please validate or comment your previous questions:

• where to get phiX annotation data?
• Phix genome kmer length
• Is normalization mandatory for read counts in RNA-seq experiments samples?
• ...

Answer 1

[davidnblake36]

Ok, so I came across this post today and none of the answers above were of any use to me, but I figured out what needs to be done.

This is for Windows 10 (who most Windows users will be using nowadays).

The critical thing is that you need a 64 bit version of java installed. And by version, I mean runtime, you do not need a development kit. The difference is a runtime runs java programs, and the development kit allows you to build java programs.

If you go to Java.com and click "Free Java Download" it will install the 32 bit version of the runtime. Do this, may as well have it.

To get the 64 bit version, you need to go to this page: https://java.com/en/download/manual.jsp and choose "Windows Offline (64 bit)". Download and install that.

To make sure you have the correct versions (32 and 64 bit) go to Control Panel and do 1 of 2 things:

1) Under "Programs" make sure you see 2 listings starting with Java. They will say something like "Java 8 Update 151" and "Java 8 Update 151 (64 bit)".

2) Open the Java control panel which you get via Control Panel in the "All Control Panel Items" view. Click on the Java tab and the View button. It should show 2 rows of installations, one being 64 bit.

Do this, and Mauve installs! Yay!

[mahmud25us]

Thank you very much. Really works.

[WouterDeCoster]

If an answer was helpful you should upvote it, if the answer resolved your question you should mark it as accepted.

[Neonny86]

thank you. It still works now. --2023.05

Answer 2

[valentina_stepanenko]

try Linux or a virtual machine, try to change user, install several java instances and finally try the other computer or refuse to use Mauve....

[Bioblazer]

In Linux worked perfectly but not with windows

Answer 3

[shenwei356]

I think you should configure the environments Path and CLASSPATH, Google it please.

The java you downloaded did not automatically configure it for you.

In Linux, it's like:

export PATH=$LOCAL_APP/java/bin/:$PATH
export CLASSPATH=.:$LOCAL_APP/java/lib/dt.jar:$LOCAL_APP/lib/tools.jar