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+#Created 07/01/2011 - Konrad Paszkiewicz, Exeter Sequencing Service, University of Exeter, UK
+Revisions 2013 by Peter Cock, The James Hutton Institute, UK
+
+The attached is a crude wrapper script for Interproscan. Typically this is useful when one wants to produce an annotation which is not based on sequence 
+similarity. E.g after a denovo transcriptome assembly, each transcript could be translated and run through this tool.
+
+Prerequisites:
+
+1. A working installation of Interproscan on your Galaxy server/cluster.
+
+Limitations:
+
+Currently it is setup to work with PFAM only due to the heavy computational demands Interproscan makes. 
+
+Input formats:
+
+The standard interproscan input is either genomic or protein sequences. In the case of genomic sequences Interproscan will of run an ORF 
+prediction tool. However this tends to lose the ORF information (e.g. start/end co-ordinates) from the header. As such the requirement here is to input ORF 
+sequences (e.g. from EMBOSS getorf) and to then replace any spaces in the FASTA header with underscores. This workaround generally preserves the relevant 
+positional information. 
+
+
+