[med-svn] r2729 - trunk/packages/ssake/trunk/debian

[tille at alioth.debian.org]

Author: tille
Date: 2008-11-24 13:36:39 +0000 (Mon, 24 Nov 2008)
New Revision: 2729

Added:
   trunk/packages/ssake/trunk/debian/ssake-examples.README.Debian
   trunk/packages/ssake/trunk/debian/ssake.README.Debian
Modified:
   trunk/packages/ssake/trunk/debian/control
   trunk/packages/ssake/trunk/debian/ssake.1
Log:
More documentation


Modified: trunk/packages/ssake/trunk/debian/control
===================================================================
--- trunk/packages/ssake/trunk/debian/control	2008-11-24 13:15:58 UTC (rev 2728)
+++ trunk/packages/ssake/trunk/debian/control	2008-11-24 13:36:39 UTC (rev 2729)
@@ -14,6 +14,7 @@
 Package: ssake
 Architecture: all
 Depends: ${shlibs:Depends}, ${misc:Depends}, ${perl:Depends}
+Suggests: ssake-examples
 Description: assembling millions of very short DNA sequences
  SSAKE is a genomics application for assembling millions of very short
  DNA sequences.

Added: trunk/packages/ssake/trunk/debian/ssake-examples.README.Debian
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake-examples.README.Debian	                        (rev 0)
+++ trunk/packages/ssake/trunk/debian/ssake-examples.README.Debian	2008-11-24 13:36:39 UTC (rev 2729)
@@ -0,0 +1,17 @@
+SSAKE examples for Debian
+=========================
+
+Due to the size of the examples which are provided by upstream these files
+are provided in a separate binary package.  You can find the files at
+/usr/share/doc/ssake/examples.  To test the examples just unpack these
+into your working directory via
+
+   cp -a /usr/share/doc/ssake/examples/* .
+   gunzip *.gz
+   ssake -f Herpesvirus_3.60kb.reads.fa -m 16 -o 2 -r 0.6 -p 0 -t 0
+
+The resultting output file is marked with pid${PROCESSID} - you might
+like to compare with the example output files.
+
+ -- Andreas Tille <tille at debian.org>  Mon, 24 Nov 2008 13:12:38 +0100
+ 
\ No newline at end of file

Modified: trunk/packages/ssake/trunk/debian/ssake.1
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake.1	2008-11-24 13:15:58 UTC (rev 2728)
+++ trunk/packages/ssake/trunk/debian/ssake.1	2008-11-24 13:36:39 UTC (rev 2729)
@@ -13,7 +13,7 @@
 .IP \-s
 Fasta file containing sequences to use as seeds exclusively (specify only if different from read set, optional)
 .IP \-m
-Minimum number of overlapping bases with the seed/contig during overhang consensus build up (default -m 16)
+Minimum number of overlapping bases with the seed/contig during overhang consensus build up (default \-m 16)
 .IP \-o
 Minimum number of reads needed to call a base during an extension (default \-o 3)
 .IP \-r

Added: trunk/packages/ssake/trunk/debian/ssake.README.Debian
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake.README.Debian	                        (rev 0)
+++ trunk/packages/ssake/trunk/debian/ssake.README.Debian	2008-11-24 13:36:39 UTC (rev 2729)
@@ -0,0 +1,14 @@
+SSAKE for Debian
+================
+
+The original ssake tarball contains a directory tools which contains
+some older versions of ssake as well as
+
+    TQS.py
+    makeFastaFileFromScaffolds.pl
+
+The use of these scripts has to be clarified.  If you need these tools
+for your work just send an e-mail to the Debian package author (see below)
+to ask for inclusion into the package.
+
+ -- Andreas Tille <tille at debian.org>  Mon, 24 Nov 2008 13:12:38 +0100