The files in this directory are bugfix replacements for files in the EMBOSS-6.3.1 distribution. Just drop the replacement files in the location shown and redo the 'make install.' Fix 1. EMBOSS-6.3.1/configure EMBOSS-6.3.1/m4/mysql.m4 21 Jul 2010: Addresses a problem whereby, in some circumstances, inclusion of hpdf support prevented inclusion of MySQL support. Using the mysql.m4 from this patch may cause a libtool error during compilation if you have a version of libtool greater than 2.2.6b on your system. If this happens type "autoreconf -fi" after adding the file. Note that you do not need to use the mysql.m4 file and it is probably safer not to; just use the configure file. Fix 2. EMBOSS-6.3.1/configure 6 Aug 2010: This is exactly the same as Fix 1 above, but the associated file in the patches directory does not contain the mysql.m4 file - it is unnecessary for the operation of the EMBOSS distribution. Using this patch will not cause the libtool problem described above. Fix 3. EMBOSS-6.3.1/ajax/graphics/ajgraph.c 9 Aug 2010: Fix potential crash using -debug Fix 4. EMBOSS-6.3.1/ajax/ensembl/ensregistry.c EMBOSS-6.3.1/ajax/ajaxdb/ajseqdb.c.c 9 Aug 2010: Allow two Ensembl sequences to be loaded without re-registering. Fix Ensembl Genomes registration. Fix Ensembl Genomes identifiers for species without stable identifiers. If the identifier does not obey a stable identifier pattern, it is matched against Exons, Transcripts and Translations in exactly that order.