[Dock-fans] Sphere_generation problem

[Scott Brozell]

Hi,

In addition, the test suite is designed to remove such files before running.
You should not get this error if you do this:
cd install; make test

Here is another way to run that test:
cd install/test/sphere_generation; make clean; make

make clean before make is also just typical unix.

Scott

On Wed, 15 Apr 2009, John J. Irwin wrote:

> Sorry to hear you are having trouble.  The problem you reported,
>
> open: 'new' file exists
> apparent state: unit 6 named OUTSPH
> lately writing direct unformatted external IO
>
> is not peculiar to DOCK, but is just a unix/fortran matter.  Anyone
> familiar with computers should be able to help you get past this, since
> you simply need to make sure the file you are writing is not there
> already.  This is a safety feature to avoid accidentally overwriting data.
>
> Unfortunately, we do not offer short term training, sorry.
>
> Wenjing.Shi at lvh.com wrote:
>>
>> I tried the way you suggested, but still got the same error message. I'm
>> feeling it's so hard to me. So I'm wondering whether there is any short-term
>> DOCK training (e.g. a week or shorter) provided. If there is, could you please
>> give me information about it?
>>
>>
>> Date: Mon, 13 Apr 2009 11:40:43 -0700
>> From: John.J.Irwin[jji]@cgl.ucsf.edu
>> To: Wenjing.Shi
>> cc: dock-fans at docking.org
>> Subject: Re: [Dock-fans] Sphere_generation problem
>> X-HDT-HopCount: 1
>>
>> try
>> rm -f OUTSPH
>> and try again
>>
>>
>> Wenjing.Shi at lvh.com wrote:
>>
>>> Hello! After I installed dock6 and made test for sphere_generation, an error
>>> message appeared as following:
>>> $ make test
>>> # Cpmstruct sphere set in active site
>>> ../../..bin/sphgen
>>> open: 'new' file exists
>>> apparent state: unit 6 named OUTSPH
>>> lately writing direct unformatted external IO
>>> 6 [sig] sphgen 2368 _cygtls::handle_exceptions: Error while dumping state
>>> <probably corrupted stack>
>>> make: *** [sphgen] Segmentation fault <core dumpted>
>>> What does this mean? Is anything wrong with installation? Any suggestions?
>>> Thank you very much for your input.