Problems compiling the Bam_readcount program

Question

[mangfu100]

Hi.

I want to use bam_readcount pipeline.

So I visit https://github.com/genome/bam-readcount and I downloaded the source files.

First I ran git clone https://github.com/genome/bam-readcount.git to download to my local pc, and then I tried to compile bam_readcount command. that is shown below.

cmake /path/to/bam-readcount/repo
make deps
make

But when I run cmake /path/to/bam-readcount/repo, they show me the error CMake Error: The source directory "/path/to/bam-readcount/repo" does not exist.

I know that there is no folder in that path. but i just followed the manual but they return these message.

How can I fix this problem?

[User 59]

Hello mangfu100!

This is not a bioinformatics question. You need to replace /path/to/bam-readcount/repo with the directory location of the git repository you checked out.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

[nnutter]

Daniel,

While the question itself is not a bioinformatics question the tool is a bioinformatics tool. We encourage users of our tools to seek support on Biostars. We automatically monitor and participate in responding to such questions. This was discussed with Istvan prior to beginning about a year or two ago. Could you please re-open the question and start a discussion on biostar-central if you think this should be revisited?

Thank you,
Nathan

[Istvan Albert]

I have reopened the question. For newcomers to the field it is difficult to properly delineate where bioinformatics ends and pure IT support type of questions start so it might be best to err on side of caution.

Answer 1

[nnutter]

It looks like you need to change /path/to/bam-readcount/repo to the path to where you cloned the bam-readcount repo to.