[Biopython-dev] Dialign2 testing...

[Peter Cock]

Hi Tiago, Ben,

>From memory if the environment variable was not
set, the command line tool would fail in a strange
way - so I made the test conditional on having the
variable set.

Perhaps things have changed slightly since 2009,
https://github.com/biopython/biopython/commit/d4ea47e27f3a8aa7ebe1460b0d96c3135f6bfba5
or maybe this depends on how dialign2 is installed...
possibly the Linux packages didn't exist back then?

Peter

On Tue, Mar 18, 2014 at 12:38 AM, Ben Fulton <ben at benfulton.net> wrote:
> I looked at that last year. As far as I could tell the actual code didn't
> do anything useful with that value; I removed the precondition checks from
> the tests and it ran properly.
>
> On Mon, Mar 17, 2014 at 12:53 PM, Tiago Antao <tra at popgen.net> wrote:
>
>> Hi,
>>
>> Still on the quest for a test run that actually runs all the tests.
>>
>> Can someone suggest what would be a sensible value for DIALIGN2-DIR?
>> It seems that setting up the test is not trivial: there seems to be a
>> need a BLOSUM file inside the dialign directory?
>>
>> Any clues would be appreciated...
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