[EMBOSS] wrappers4EMBOSS 2.2.0 released

[Guy Bottu]

	Dear users of wrappers4EMBOSS,

This message only concerns you if you are using wrappers4EMBOSS with one of the 
following : EMBOSS version 6, a local installation of MRS version 3, fastA, 
ps_scan.pl for searching PROSITE, InterProScan version 4.4, a Web Service access 
to WU-BLAST and fastA at the EBI.

You might have to upgrade for the following reasons :
- The MYEMBOSS-6.0.0 package does not contain test programs. As a consequence 
the installation script of wrappers4EMBOSS failed on a "fresh" installation and 
had to be re-run. This bug has been fixed.
- The script mrsget.pl (used to query a local MRS 3 installation) sometimes gave 
erroneous results. This bug has been fixed (with help of MRS developer Maarten 
Hekkelman).
- The programs fastasearch and fastapid from the fastA module have been modified 
so that the entire description line is now included in the output (truncated 
description lines can be terribly uninformative...). Bug fixes in both the 
"wrapper" and in the fastA suite itself (by "Bill" Pearson after submission of a 
bug report) make that it is (again) possible to switch off statistics and obtain 
just a list of n best "hits" (in case you might need that). We have also made 
the installation of the old fastA version 2 suite for the purpose of pairwise 
comparison optional.
- A novelty is that PROSITE pattern matches can be validated using a second 
search against a mini-profile. The "wrapper" for ps_scan has been adapted to run 
with the latest version of ps_scan.pl and the evaluator.dat file that is 
distributed with PROSITE. This validation is performed by default but can be 
switched off. This new way of handling PROSITE has also been introduced in 
InterProScan version 4.4 and the "wrapper" has been modified accordingly.
- The lists of available databases in the ebi_blast and ebi_fasta programs has 
been updated. We can mention that the HGVBASE at the EBI is now at last 
searchable by WU-BLAST.

	Regards,
	Guy Bottu,
	Belgian EMBnet Node - wEMBOSS development team