Linux Error : Undefined reference to BAMTools while compiling makefile
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23 months ago

Hi, Iam currently trying to install EUPAN toolkit (EUkaryotic pangenome analysis toolkit) for pangenome analysis using this installation guide: http://cgm.sjtu.edu.cn/eupan/installation.html I have downloaded the toolkit but the make command doesn't run and gives error as shown in the screenshot. Kindly guide me step by step commands as to how the issue can be resolved. (This is my first time working in linux)

Screenshot of linux error

RNA-Seq software error alignment linux R • 601 views
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your screenshot is not showing.

have a look here, How to add images: How to add images to a Biostars post

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Did you run Rscript installRPac first? It seems to me that your error is caused by a missing package.

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I had run the Rscript which was just for installing R packages. My problem is resolved though. I shall be grateful if you could answer this question for me? How to download proteins in my scenario?

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22 months ago

I fixed your post.

You are using a version of gcc that is too advanced. You have to compile it with a version pre gcc v5.0 (I think) - try gcc v4.1 if possible. I am not sure if you can even install that easily on your Ubuntu 18.04 OS. As you say that this is your first time working in linux, please ask your System Administrator, or a friend / colleague who has experience in this area.

Kevin

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@kevin Thankyou for fixing my post and also resolving my error. This certainly worked for me. Could you answer another query for me? How to download proteins in my scenario?

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