[Biophp-dev] Re: Working (at least on my system) example tutorial for frontend_blast.php

[S Clark]

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line 155 is the line which changes the current working directory to
where the data dir is supposed to be.  Evidently, PHP thinks that=20
whatever directory you set as the data directory doesn't exist (or
maybe is mispelled?)

http://us2.php.net/manual/en/function.chdir.php

This does not appear to be a 'platform sensitive' function (only a few
PHP functons are).

The "formatdb" program is used to convert a fasta file into
a set of BLAST database files, so once this program has been
run, the database files should exist.  In the example I use, the
database files for that amino acid patent database
("pataa") are:
pataa.phr
pataa.pin =20
pataa.pnd =20
pataa.pni =20
pataa.psd =20
pataa.psi =20
pataa.psq

The "database name" that you give to BLAST is just "pataa" in this case.

Without knowing exactly how your system is set up, I would just guess
that you have the path to the database files mis-typed in some way.

Unlike the path to the blast executable, you don't need to include the
database name in the "data directory" path.


On Sunday 16 November 2003 03:52 pm, you wrote:
> hi Sean !
> here is the error message i have when i execute the example :
> -------
> Warning: chdir(): No such file or directory (errno 2) in
> d:\easyphp1-7\www\ycmpdb\frontend_blast.php on line 155 -------
> is chdir() proper to unix/linux systems?? is there an option for windows
> systems ? ANIBA !
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