CHANGES

• Fixed an error in birchconfig.sh which failed to detect when python was absent from the $PATH.
• NCBI has split the GenBank ACCESSION index among several files. gbupdate has been revised to automatically downoad and install all of these files.
• Taverna has been upgraded to version 1.5.1.
• The Network Entrez client no longer works, and has not been supported by NCBI for some time. It has been removed from BIRCH.
• NCBI Sequin has been upgraded to version 7.3.
• The Phylip TREEDIST program has been added to tGDE.
• In GDE, if FEATURES is launched with no sequences selected, getob would go into an infinite loop. This has been fixed in FEATURES.
• MrBayes 3.1 has been added to BIRCH. MrBayes uses Bayesian methods for phylogenetic analysis of nucleic acids, proteins, molecular marker and discrete morphology data.
• On some linux-intel systems, sequin would not run because it could not find two library files (libXm.so.2,libXp.so.6). Sequin is now run through a wrapper script that adds this file to the LD_LIBRARY_PATH.
• The Phylip PARS program has been added to mGDE
• Bluejay has been updated to version 0.701