Installing Bsoft on Cygwin

Version 1.7.0

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Installation

Cygwin provides a virtual Linux environment running within Windows NT and is available from the following web site:

http://www.cygwin.com/

Bsoft can be installed within Cygwin in a fashion similar to Linux, but very little testing has been done and some or all of the Bsoft programs may run into problems. The Cygwin installation requires at a minimum certain packages used in Bsoft (it is best to install all packages from the Cygwin site to ensure that all tools are available):

• gcc compilers for C and C++
• X11
• Tcl/Tk

The installation is the same as for Unix in general (see Unix installation). The recommended location for Bsoft is in /usr/local. If you want to install Bsoft in a different location, change the environment variable BSOFT to point to the appropriate directory:

setenv BSOFT /usr/local/bsoft

OR

setenv BSOFT $OTHERPATH/bsoft

Copy the distribution file to the desired directory (e.g., /usr/local) and unpack it as follows (it will unpack into a directory named "bsoft"):

Unzip the distribution file and unpack the tar file:
gunzip bsoft1_6_0 .tgz
tar -xvf bsoft1_6_0 .tar

OR

Unpack the gzipped tar file directly:
tar -xzvf bsoft1_6_0 .tgz

All programs are compiled with the C-shell script "bmake" in the main bsoft directory (the -w option prevents display of warnings):

bmake

 

Environment

During compilation the script bmake writes two small files called "bsoft.cshrc" and "bsoft.bashrc" with the required environmental variables. The following Bsoft-specific variables are required:

• BSOFT: The main environmental variable pointing to the Bsoft location (usually /usr/local/bsoft)
• BSOFT32: In cases where both 32 and 64 bit versions of Bsoft is required, this variable points to the 32 bit version directory (usually /usr/local/bsoft32)
• BPARAM: This variable points to a directory in the Bsoft tree that includes parameter files for molecular modeling and filter kernels.

The following general environmental variables need to be modified as well:

• PATH: This points to the executable files (usually /usr/local/bsoft/bin)
• LD_LIBRARY_PATH: This points to the directory with the shared libraries (usually /usr/local/bsoft/lib)

For the bash shell, add the following line to the end of the .bash_profile file:

source /usr/local/bsoft/bsoft.bashrc

For the csh or tcsh, add the following line to the end of the .cshrc or .tcshrc file:

source /usr/local/bsoft/bsoft.cshrc

The statements in the bsoft.* files can also be added directly to the resource files.

 

Bernard Heymann 20100218