Question: GERMLINE software libc and libstdc++ error
0
gravatar for moithuti
11 months ago by
moithuti0
moithuti0 wrote:

Hi,

I am trying to run some shared segment analysis on phased genotype data using GERMLINE 1.5.3. However I get the following error when I execute my bash script:

/lib64/libc.so.6: versionGLIBC_2.14' not found (required by germline-1-5-3/bin/germline)

/usr/lib64/libstdc++.so.6: versionGLIBCXX_3.4.15' not found (required by germline-1-5-3/bin/germline)

/usr/lib64/libstdc++.so.6: versionCXXABI_1.3.8' not found (required by germline-1-5-3/bin/germline)

/usr/lib64/libstdc++.so.6: versionGLIBCXX_3.4.21' not found (required by germline-1-5-3/bin/germline)

/usr/lib64/libstdc++.so.6: versionCXXABI_1.3.9' not found (required by germline-1-5-3/bin/germline)

How do I find and install these?

Thanks

ADD COMMENTlink modified 11 months ago by Devon Ryan93k • written 11 months ago by moithuti0

Please give your system's details and OS version. Did you already try to search for the error message in a search engine?

ADD REPLYlink written 11 months ago by Kevin Blighe52k

Hi Kevin,,

I looked up how to find the OS version and my output says Red Hat Enterprise Linux release 6.10 (Santiago). I had also tried out a suggested solution from Ask Ubuntu. I ran: sudo install libc6 and got:

install: cannot stat `libc6': No such file or directory

ADD REPLYlink modified 11 months ago • written 11 months ago by moithuti0
1

What about trying to install via yum?

ADD REPLYlink written 11 months ago by Kevin Blighe52k

I have browsed the entry on yum and looks like it may achieve what need. But given what is posted below by Devon, maybe I should just send in a request to the system admin. I have limited unix experience, however I try to see if I can solve any problem I encounter or try get advice on how to solve the problem before asking our systems admin for help.

ADD REPLYlink modified 11 months ago • written 11 months ago by moithuti0

Upgrading libc is a good way to completely hose your system, definitely leave this for the sysadmin.

ADD REPLYlink modified 11 months ago • written 11 months ago by Devon Ryan93k

Thanks for the helpful suggestions

ADD REPLYlink written 11 months ago by moithuti0
1
gravatar for Devon Ryan
11 months ago by
Devon Ryan93k
Freiburg, Germany
Devon Ryan93k wrote:

You're using an incredibly old kernel and version of libc which you cannot upgrade without completely upgrading your system. Use a server with more recent kernel and version of libc.

ADD COMMENTlink written 11 months ago by Devon Ryan93k

Hi Devon,

I am a user on a multiple user server. What should I recommend to the systems admin?

ADD REPLYlink written 11 months ago by moithuti0
1

If they like RHEL, then something from release 7.

ADD REPLYlink written 11 months ago by Devon Ryan93k
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