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Old 01-28-2011, 05:44 AM   #21
Zigster
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yes please post it
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Old 01-28-2011, 07:24 AM   #22
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For repeats, you can have a look at his dissertation

http://www.ebi.ac.uk/training/ftp/Ph...el_Zerbino.pdf

See Chapter 4. Hope this makes it more clear.

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Old 03-08-2011, 06:48 AM   #23
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Is this presentation available?
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Old 03-10-2011, 12:56 AM   #24
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dude seem to have vanished :O hope presentation went fine.
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Old 05-19-2011, 11:47 PM   #25
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Hey guys,
was anyone able to compile Velvet 1.1.04, released yesterday by D. Zerbino?

Code:
src/readSet.c:34: fatal error: zlib.h: File or directory not found
compilation terminated.
Hope someone has an idea, thanks a lot!

Edit: Problem is solved, thanks a lot!

Last edited by Jenzo; 05-20-2011 at 12:40 AM. Reason: Problem solved
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Old 05-20-2011, 09:11 AM   #26
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Quote:
Originally Posted by Jenzo View Post
Hey guys,
was anyone able to compile Velvet 1.1.04, released yesterday by D. Zerbino?

Code:
src/readSet.c:34: fatal error: zlib.h: File or directory not found
compilation terminated.
Hope someone has an idea, thanks a lot!

Edit: Problem is solved, thanks a lot!
So what was the solution?
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Old 05-20-2011, 09:27 AM   #27
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you can copy the *.o files in third-party/zlib-1.2.3 from an older velvet version. I am pretty sure that they did not changed.
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Old 05-20-2011, 10:53 AM   #28
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Quote:
Originally Posted by nilshomer View Post
So what was the solution?
I'm going to hazard a guess that they had to either install zlib or modify the makefile to link up correctly.
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Old 05-20-2011, 11:15 AM   #29
Jenzo
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Daniel Zerbino wrote today:
Quote:
Dear all,

my sincere apologies for the compilation bug which was lying in the
recently updated code. I have just updated the repositories. Thanks to
Sylvain ForÍt for quickly correcting it.
[...]
Regards,

Daniel
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Old 05-21-2011, 01:44 AM   #30
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yup Jenzo, also did get this email, but the oases compilation bug "src/readSet.c:34: fatal error: zlib.h: File or directory not found compilation terminated." is still there. ;-)
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Old 05-22-2011, 10:36 PM   #31
Jenzo
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hehe, then one should prefer your solution, Thorondor ;-)
I just changed line 34 of readSet.c into the directory of zlib.h from third-party/zlib-1.2.3 and it worked fine.
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Old 08-24-2011, 09:19 AM   #32
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Hi,

Not sure where to put this post, but I'll try here.

I am a student trying to understand velvet with little knowledge of computers! I am wondering how the contigs produced by velvet are named; is it by the first node at the start of the contig? I don't think it is completely necessary to understand this to use the assembly, but I am interested in how the program works.

Many thanks!
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