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Re: [Seqan-dev] seqan-dev Digest, Vol 32, Issue 8

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Hi Neil,


On Thursday, May 31, 2012 12:12 PM, Neil Justice wrote:

error C3861: 'Bam': identifier not
found	c:\Seqan\seqan-trunk\extras\demos\bam_library_size.cpp	244
error C2665: 'open' : none of the 8 overloads could convert all the
argument types	c:\Seqan\seqan-trunk\extras\demos\bam_library_size.cpp	238
error C2079: 'inBamStream' uses undefined class
'seqan::Stream'	c:\Seqan\seqan-trunk\extras\demos\bam_library_size.cpp	237
error C2065: 'Bgzf' : undeclared
identifier	c:\Seqan\seqan-trunk\extras\demos\bam_library_size.cpp	237
I think this is a problem with building the demos -- it doesn't necessarily mean that you have a problem with your Seqan installation... 



Assuming these errors are resolved by obtaining zlib/bzlib: link
https://trac.seqan.de/wiki/HowTo/InstallContribsWindows leads to a
login/password prompt for FU Berlin for which I have no login or
password. Is there another link to zlib/bzlib?



zlib and bzlib are public.  Try digging around:

http://zlib.net/
http://www.bzip.org/
for library versions that are suitable for Windows. After you install them, you should check that CMake can indeed find them. That's unrelated to Seqan -- for example, skim over this message about getting Zlib to work under Windows with CMake: 

http://www.cmake.org/pipermail/cmake/2006-October/011466.html



Also, which files contain the most performance-sensitive code?
Quite frankly, if there was a section of code that was performance-sensitive and they knew about it, I think the Seqan developers (which, BTW, is not me) would have spotted it and fixed it. :-D
On the other hand, they may have something on their to-do list that they never got around to fixing... 

Ray
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