[Blends-commit] r2678 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Thu Feb 17 14:45:56 2011
New Revision: 2678

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2678
Log:
Join two separate entries of smile

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2678&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Thu Feb 17 14:45:56 2011
@@ -741,6 +741,21 @@
  .
  The specificity of SMILE is to allow to deal with what we call structured
  motifs, which are motifs associated by some distance constraints.
+ .
+ Smile determines sequence motifs on the basis of a set of DNA, RNA or
+ protein sequences. The work was originally described in the Journal of
+ Computational Biology (2000) 7:345-362 and has since been developed
+ further.
+  * No hard limit on the number of combinations of motifs to describe
+    subsets of sequences.
+  * The sequence alphabet may be specified.
+  * The use of wildcards is supported.
+  * Better determination of significance of motifs by simulation.
+  * Introduction of a set of sequences with negative controls
+    that should not match automatically determined motifs.
+Remark: We do not know anybody who actually uses SMILE and thus the
+ packaging effort is stalled.  Feel free to tell us, if you are
+ interested in turning this into an official package.
 
 Depends: cactus
 Homepage: http://www.cactuscode.org/Community/Biology.html
@@ -1359,29 +1374,6 @@
  .
  On the other hand the SMILE author told us in private mail that he
  thinks that RISO is dead and SMILE continues to have some importance.
-
-Ignore: smile
-Homepage: http://www-igm.univ-mlv.fr/~marsan/smile_english.html
-License: GPL
-WNPP: 221492
-Responsible: Steffen Moeller <moeller at debian.org>
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/smile/trunk/
-Pkg-Description: Find statistically significant patterns in sequences
- Smile determines sequence motifs on the basis of a set of DNA, RNA or
- protein sequences. The work was originally described in the Journal of
- Computational Biology (2000) 7:345-362 and has since been developed
- further.
-  * No hard limit on the number of combinations of motifs to describe
-    subsets of sequences.
-  * The sequence alphabet may be specified.
-  * The use of wildcards is supported.
-  * Better determination of significance of motifs by simulation.
-  * Introduction of a set of sequences with negative controls
-    that should not match automatically determined motifs.
- .
- Note: We do not know anybody who actually uses SMILE and thus the
- packaging effort is stalled.  Feel free to tell us, if you are
- interested in turning this into an official package.
 
 Depends: mummergpu
 Homepage: http://mummergpu.sourceforge.net/