cannot configure or make install samtools 0.1.19

Question

[trodriguez2011]

I need to install a certain version of samtools (0.1.19) (found at https://sourceforge.net/projects/samtools/).

./configure returns "no such file..." make works correctly (from what I can tell) sudo make install returns "make: * No rule to make target 'install'. Stop."

Different versions work fine. I'm completely lost, the readme doesn't provide any help and I am not savvy enough to detect any problems in the makefile. Any help would be greatly appreciated after hours of failed attempts...

[GenoMax]

That is an ancient version of samtools. What tool are you trying to use that needs this version? Ideally you should not be using either of these.

./configure returns "no such file..." make works correctly

If you are not able to ./configure then there is no way make is working correctly. What OS are you doing this on?

[trodriguez2011]

ericscript requires this specific version (https://sites.google.com/site/bioericscript/) Ubuntu 18.04.1

Answer 1

[h.mon]

The old versions of samtools didn't use a configure script, and also the makefile didn't include a "install" target. One has to copy the files by hand after compiling - there is the samtools executable (and a bunch of other execs under the "misc/" folder), the static library "libbam.a", and the header "sam.h".

Why do you need this version specifically? As genomax said, unless you really need it, you should use a newer version.

[trodriguez2011]

ericscript requires this specific version (https://sites.google.com/site/bioericscript/ ). Thank you for your reply

[finswimmer]

Hello trodriguez2011 ,

I cannot see that this program needs this specific version. It just stated out that it needs samtools.

I would recommend to have a look at bioconda. With this you can easily install different versions of samtools.

fin swimmer

EDIT: And also ericscript is available. So conda will install the necessary dependencies for you.

[trodriguez2011]

Also, I'm still a little confused as to what I need to move where and how people used this when 0.1.19 was the latest version