Created attachment 227873 [details]
Unified diff adding C wrapper
The attached patch turns emboss commands into subcommands much like those used by bwa, samtools, bedtools, etc. This allows users to run emboss commands without altering their PATH, and allows simultaneous access to conflicting commands such as /usr/local/bin/garnier and /usr/local/emboss/bin/garnier.
emboss garnier # Runs /usr/local/emboss/bin/garnier
garnier # Runs /usr/local/bin/garnier (from biology/fasta)
Forgot to mention, I have already asked upstream to include this in future distributions.
Created attachment 227917 [details]
Improved wrapper (added usage message)