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How to compile GenomeThreader with your own libgenometools.a:
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1.) Put genometools and gthlibdist in _parallel_ directories. For example:
/home/gordon/gthlibs-1.6.0-Linux_x86_64-64bit
/home/gordon/genomeotools
(The latter directory must be named genometools)
2.) Compile libgenometools.a:
$ cd /home/gordon/genometools
$ make cairo=no curses=no 64bit=yes
3.) Link GenomeThreader
$ /home/gordon/gthlibs-1.6.0-Linux_x86_64-64bit
$ make
The gth and gthconsensus binaries will be in the bin/ directory.
Copy your license file there to run them.
Typical development cycle:
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1.) Source code: edit files in genometools/src/gth
2.) Recompile: repeat steps 2.) and 3.) from above
3.) Re-run: call bin/gth
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