[jevcampe]

We have installed tack-5.9-12.5.1.x86_64.rpm which was required to install
ncurses-devel-5.9-12.5.1.x86_64.rpm
However i've not installed libncurses5-dev

[GenoMax]

If you have installed ncurses and ncurses-devel (note 2 separate libraries) libraries for openSUSE then you should be set. (This library is called libcurses5-dev in Ubuntu).

You may need to edit the makefile or pass an option to the compiler to use "-lncurses" instead of "-lcurses" that it is using by default. Google for that/search here. I think this has come up before in different contexts. I will see if I can find that thread.

[jevcampe]

So we've installed ncurses-devel-5.9-12.5.1.x86_64.rpm
which is I assume the ncurses-devel lib you refer to.

Which is the ncurses lib? I can't seem to find it, I can like only find :
ncurses-devel-5.9-12.5.1.x86_64.rpm (which we have installed)
Therefore we have not yet installed the ncursus lib. It is possible that the problem is resolved with installing this lib but then I still need to find it.



considering the editing of the makefile:
I will certainly google it, and search here.

[GenoMax]

Here is a link I found: http://pkgs.org/download/ncurses Look under opensuse 12.2. It may be called "libncurses". You may need to look for this at your official package source.

[jevcampe]

It works, ok it is running :-), thank you very much for your help. Really appreciate it.

[robinvvelzen]

problem solved

You need to install "libncurses5-dev" library. If this is Ubuntu.

Just a quick reply to confirm that I had the same error message and that this answer helped resolve it. So thanks!

[Rigoseq]

Sorry for the elementary question, but I am new to these environments. I am having the same problem and I think I have gotten ncurses installed, but not the library. Are these suggestions/downloads the same in the Linux version that underlies Mac OS X? Thanks in advance....

[swe5191]

Assembly results of 454 data using Trinity

Hi,
I have performed Trinity denovo assembly using DDBJ pipeline. and I got the following assembly stats as result :
Contig # : 5,009
Total contig size : 2,205,041
Maximum contig size : 3,288
Minimum contig size : 201
N50 contig size : 475

My original data set contained 81146 reads and after preprocessing like quality check and trimming I got 72018 reads.. How do I interpret this result? Is this assembly result a reasonable one?

[GenoMax]

Sorry for the elementary question, but I am new to these environments. I am having the same problem and I think I have gotten ncurses installed, but not the library. Are these suggestions/downloads the same in the Linux version that underlies Mac OS X? Thanks in advance....

Can you post the error message you are getting?

[GenoMax]

Hi,
I have performed Trinity denovo assembly using DDBJ pipeline. and I got the following assembly stats as result :
Contig # : 5,009
Total contig size : 2,205,041
Maximum contig size : 3,288
Minimum contig size : 201
N50 contig size : 475

My original data set contained 81146 reads and after preprocessing like quality check and trimming I got 72018 reads.. How do I interpret this result? Is this assembly result a reasonable one?

Create a new thread for this question since it is unrelated to the parent. People are not likely to respond to questions buried inside threads.

SeqAnswers.com --> Forums (on left) --> Select Appropriate forum to post in --> "New thread" button at top left of the page.

Do you have any information about the genome you are dealing with (from a related one if your's is totally new)? You should be able to take these 5K contigs and do some similarity searches against the closest related genome that is available.

[Jkdubblu]

Im still learning about programing so this might be a simple question. Does the ncurses have to be downloaded into the same file as trinity?

[GenoMax]

Im still learning about programing so this might be a simple question. Does the ncurses have to be downloaded into the same file as trinity?

libncurses is a system library. It is installed on the OS side. Talk with your sys admins if you are getting an error with Trinity install.