Update scripts, Dockerfile with new GitHub organization (#38)

Author: lcoombe

Dockerfile

@@ -6,7 +6,7 @@ FROM debian:testing
 #
 # Authorship
 #
-MAINTAINER rwarren@bcgsc.ca
+MAINTAINER rwarren@bccrc.ca
 
 #
 # Update and Install dependencies
@@ -16,7 +16,7 @@ RUN apt-get update -qq && apt-get install -y bwa wget cpanminus
 #
 # Download the software
 #
-RUN wget https://github.com/bcgsc/RAILS/tree/master/tarball/rails_v1-5-0.tar.gz && tar xvfz rails_v1-5-0.tar.gz && rm rails_v1-5-0.tar.gz 
+RUN wget https://github.com/BirolLab/RAILS/tree/master/tarball/rails_v1-5-0.tar.gz && tar xvfz rails_v1-5-0.tar.gz && rm rails_v1-5-0.tar.gz 
 
 #
 # Set the default working directory

bin/RAILS

@@ -2,7 +2,7 @@
 
 #AUTHOR
 #   Rene Warren
-#   rwarren at bcgsc.ca
+#   rwarren at bccrc.ca
 #
 #
 #   NAME
@@ -13,7 +13,7 @@
 #
 #   DOCUMENTATION
 #      readme.md distributed with this software
-#      We hope this code is useful to you -- Please send comments & suggestions to rwarren * bcgsc.ca
+#      We hope this code is useful to you -- Please send comments & suggestions to rwarren * bccrc.ca
 #      If you use RAILS, the RAILS code or ideas, please cite our work
 #     
 #
@@ -28,7 +28,7 @@ getopts('f:s:d:e:l:a:v:b:t:p:i:q:g:p:');
 my ($base_name,$anchor,$seqid,$insert_stdev,$min_links,$max_link_ratio,$grace,$verbose)=("",1000,0.9,1.0,1,0.99,1,0,);
 
 my $version = "[v1.5.1]";
-my $dev = "rwarren\@bcgsc.ca";
+my $dev = "rwarren\@bccrc.ca";
 my $SAMPATH = "";
 #-------------------------------------------------
 
@@ -1286,4 +1286,4 @@ sub buildScaffoldFasta{
    return $scaffold_fasta,\@gsl,$merges;
 }
 
-## We hope this code is useful to you -- Please send comments & suggestions to rwarren at bcgsc.ca
+## We hope this code is useful to you -- Please send comments & suggestions to rwarren at bccrc.ca

bin/cobbler.pl

@@ -2,7 +2,7 @@
 
 #AUTHOR
 #   Rene Warren
-#   rwarren at bcgsc.ca
+#   rwarren at bccrc.ca
 
 
 #NAME
@@ -13,7 +13,7 @@
 
 #DOCUMENTATION
 #   readme.md distributed with this software
-#   We hope this code is useful to you -- Please send comments & suggestions to rwarren * bcgsc.ca
+#   We hope this code is useful to you -- Please send comments & suggestions to rwarren * bccrc.ca
 #   If you use RAILS, the RAILS code or ideas, please cite our work
 #  
 
@@ -28,7 +28,7 @@
 my ($base_name,$anchor,$seqid,$verbose,$minreads,$grace)=("",1000,0.9,0,1,1);
 
 my $version = "[v0.6.1]";
-my $dev = "rwarren\@bcgsc.ca";
+my $dev = "rwarren\@bccrc.ca";
 my $SAMPATH = "";
 
 #-------------------------------------------------
@@ -810,4 +810,4 @@ sub stdev{
         return $std;
 }
 
-## We hope this code is useful to you -- Please send comments & suggestions to rwarren at bcgsc.ca
+## We hope this code is useful to you -- Please send comments & suggestions to rwarren at bccrc.ca