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Installation according to the instuctions:
"Obtain Bowtie sources from the Download section of the Sourceforge project site. Extract the sources, change to the directory where they were extracted, and build the Bowtie tools by running GNU make (usually with the command make, but sometimes with gmake) with no arguments. "
However typing "make" in the uncompressed bowtie directory from the AMD64 download produces the following message:
make: *** No targets specified and no makefile found. Stop.
Inspection of the directory reveals no Makefile.
Are these installation diretions incorrect or am I doing something wrong or is there something wrong with the package?
Thanks for your help
That text is from the "Obtaining and Building Bowtie Sources" section of the manual (as opposed to the "Obtaining Bowtie Binaries" section). The archive you downloaded was not a source archive, it was a binary archive.
Hope that helps,
I am having the same problem. However I do not understand your answer. Could you please be more descriptive about what you mean?