From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Tue, 10 May 2011 10:35:48 +0000 (+0000)
Subject: fixed type cast bug
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=be77de27ae5af645ff75447371cf9b0383273d00;p=biopieces.git

fixed type cast bug

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1396 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/bp_bin/analyze_assembly b/bp_bin/analyze_assembly
index b30517a..a946d2c 100755
--- a/bp_bin/analyze_assembly
+++ b/bp_bin/analyze_assembly
@@ -35,10 +35,10 @@ require 'prodigal'
 require 'pp'
 
 casts = []
-casts << {:long=>'gene_cov',  :short=>'g', :type=>'flag',      :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
-casts << {:long=>'full',      :short=>'p', :type=>'procedure', :mandatory=>true,  :default=>'single', :allowed=>'single,meta', :disallowed=>nil}
-casts << {:long=>'no_stream', :short=>'x', :type=>'flag',      :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
-casts << {:long=>'data_out',  :short=>'o', :type=>'file',      :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
+casts << {:long=>'gene_cov',  :short=>'g', :type=>'flag',   :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
+casts << {:long=>'procedure', :short=>'p', :type=>'string', :mandatory=>true,  :default=>'single', :allowed=>'single,meta', :disallowed=>nil}
+casts << {:long=>'no_stream', :short=>'x', :type=>'flag',   :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
+casts << {:long=>'data_out',  :short=>'o', :type=>'file',   :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
 
 bp = Biopieces.new
 
diff --git a/bp_bin/find_genes b/bp_bin/find_genes
index f0d64c8..367b976 100755
--- a/bp_bin/find_genes
+++ b/bp_bin/find_genes
@@ -34,8 +34,8 @@ require 'fasta'
 require 'prodigal'
 
 casts = []
-casts << {:long=>'full', :short=>'f', :type=>'flag',      :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
-casts << {:long=>'full', :short=>'p', :type=>'procedure', :mandatory=>true,  :default=>'single', :allowed=>'single,meta', :disallowed=>nil}
+casts << {:long=>'full',      :short=>'f', :type=>'flag',   :mandatory=>false, :default=>nil,      :allowed=>nil,           :disallowed=>nil}
+casts << {:long=>'procedure', :short=>'p', :type=>'string', :mandatory=>true,  :default=>'single', :allowed=>'single,meta', :disallowed=>nil}
 
 bp = Biopieces.new