Do you know that (I think) you can get the signed certificate from JANET
for free and use it instead from self-signed certificate. This will make
it easier for developers to use the new jalview repository!
On 16/05/2011 16:11, Jim Procter wrote:
We (Tom Walsh, myself, and Chris Scott of the CLS's high performance
computing group) have just finished setting up Jalview's official git
repository at :
You can also browse the repository over gitweb at :
If you want commit rights to the jalview repository, then you need to
make sure you have a valid username and password at
issues.jalview.org, and that I've added you to the jira-developers
group. You should then be able to login here:
And see the following response:
hello<your username>, the gitolite version here is v2.0-27-gd74e58b
the gitolite config gives you the following access: @R W jalview
The 'W' means you can commit changes.
For the moment, we are using SSL certificates which are not trusted
by any of the root certificate authorities like thawte or verisign.
They may also have some incorrect address fields (like
www.compbio.dundee.ac.uk). This will cause problems unless you
disable SSL certificate verification.
To do this for the git command line client, you should set :
GIT_SSL_NO_VERIFY=1 in your environment when you access the jalview
git repository. e.g. : GIT_SSL_NO_VERIFY=1 git
For accessing the repository via the Eclipse EGit plugin : 0. first
install EGit - the Eclipse GIT plugin (should also install the JGit
java git implementation). 1. Disable SSL certificate checking by
either: a. Navigate to the Team->Git configuration in eclipse
preferences and click the 'New entry...' button. Enter
'http.sslVerify' in the Name field, and 'false' in the value field.
Or: b. Press the 'Open' button to open the git config file, and add
the lines (note spaces before sslVerify): [http] sslVerify = false
2. Check you can access and clone the repository by using the Git
repository explorer perspective. Remember to use
‘https://source.jalview.org/git/jalview.git’ as the repository URL.
Finally, if you are new to Git (like I am), then you should do some
reading to learn how to work with this system. I'll eventually add
some 'Git essentials' to the source and developer pages on the
Jalview website, but for the moment, here are some pointers:
Bioperl's how-to for git: a. Basic git clone/update
procedure:http://www.bioperl.org/wiki/Using_Git b. Git branching and
pushing commits to upstream (ie committing changes to master
The complete git reference:http://progit.org/book/
Enjoy! Jim. _______________________________________________
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