1 ### >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
3 ### DO NOT MAKE ANY CHANGES
5 ### Stuff that enables Biopieces.
7 ### BP_DIR, BP_DATA, BP_TMP, and BP_LOG should all be set in ~/.bashrc
8 ### see http://code.google.com/p/biopieces/wiki/Installation
10 ### The below bin directory should hold biopiece executables - regardsles of programming language.
12 export BP_BIN="$BP_DIR/bp_bin" # Directory with biopiece executables.
14 ### The following directories hold the biopiece libraries, modules, gems, etc - one per programming language.
16 export BP_PERL="$BP_DIR/code_perl" # Direcotory with Perl code.
17 export BP_C="$BP_DIR/code_c" # Direcotory with C code.
18 export BP_PYTHON="$BP_DIR/code_python" # Direcotory with Pyton code.
19 export BP_RUBY="$BP_DIR/code_ruby" # Direcotory with Ruby code.
21 ### This is the directory with the document root fro the Biopieces Genome Browser:
23 export BP_WWW="$BP_DIR/www" # Direcotory with Biopieces Genome Browser.
25 ### Here we add the biopiece variable to the existing PATH.
27 export PATH="$PATH:$BP_BIN"
29 ### Here we add the Biopieces Perl modules to PERL5LIB.
31 export PERL5LIB="$PERL5LIB:$BP_PERL"
33 ### Here we add the Biopieces Ruby libraries to RUBYLIB.
35 export RUBYLIB="$RUBYLIB:$BP_RUBY/lib"
37 ### Some useful aliases.
39 alias bp_update="svn update $BP_DIR && svn update $BP_DIR/bp_usage"
40 alias bp_test="$BP_DIR/bp_test/test_all"
42 ### >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
45 ### Martin A. Hansen, June 2008