[Biopython] Permissions for Bio, BioSQL, Martel

[Finsen Chiu]

This has been resolved.  For the record, here is the resolution:

I built and tested as an user and that went fine.  I saw that the proper 
permission for the Bio, BioSQL and Martel should be umask 002.

So I proceeded with installing as root with umask 002.

Thanks,

Finsen

Peter wrote:
> On Thu, Sep 17, 2009 at 1:00 AM, Finsen Chiu <fchiu at newton.berkeley.edu> wrote:
>   
>> I am using RHEL4
>>
>> I built and installed as root and both went smoothly without interruption.
>>     
>
> OK, good that it worked. But I don't normally do the build and test as root,
> just use sudo for the install at the end.
>
>   
>> Running the test as root is fine, but the permission denied errors came when
>> running the test as a user.
>>
>> So, I wonder if I need to give users write permission to those files (which
>> I am not wanting to do) or if those errors are negligible.
>>     
>
> Switching the permissions would work, but the best solution to not to
> run the tests as root in the first place. If you do the build and test as
> a normal user, all the temp test files will have normal user permissions.
>
> [Normally there shouldn't be any left over temp files from the tests,
> so I guess a test failed or was interupted before it could clean up]
>
> Peter
>
>