libxqilla error with GeneTorrent

[bwubb]

Unclear if this is a Bioinformatics issue or a Unbuntu one, but here goes.

I have access to download TCGA bam data via the UCSC CGhub software GeneTorrent.

When executing I recieve this error:

./../libexec/gtdownload: error while loading shared libraries: libxqilla.so.5: cannot open shared object file: No such file or directory

I have libxqilla6 and the software requirements say libxqilla 5 or higher.

Anyone have any experience using GeneTorrent or can provide a better explanation of this error than google results?

Thank you.

[GenoMax]

Can you check the following to see the location of the linked libraries to make sure the right library is linked?

$ ldd /full_path_to/gtdownload

[bwubb]

Well there are two gtdownloads, one in a bin and one in a libexec

ldd on the bin/gtdownload says it is not a dynamic executable. This is the one I have been trying to execute though and if gives the original error.


ldd libexec/gtdownload displays the list of libraries linked. Two things I noticed.

1. There is no libxqilla listed at all.

2. libgenetorrent.so.0 => not found

So if I try to execute libexec/gtdownload I get a similar error as before, except it complains about not finding libgenetorrent.so.0 instead. That is not a apt-get package, but it does exist in the GeneTorrent share/ directory.

[GenoMax]

Did you install the program using the source or the .deb package for Ubuntu?

You may want to try

sudo apt-get -f install

to install any missing dependencies.

[bwubb]

Neither I think, I chose the tarball package option available to Ubuntu11 users. I use 12.4 though and technically there is no specific package for 12 like there is for 10 and 11. Maybe that is the issue, but it is not clear to me based on the errors.

I ran through the list of dependencies and they were "apt-got" without issue.

I attempted to symb link libxqilla.so.6 as libxqilla.so.5 in /usr/local/bin, but it did not work, nor did linking libgenetorrent.so.0, which the other gtdownload yells about.

[GenoMax]

I am afraid it looks like you may have to compile the package from source.

I tried the pre-compiled tar and gtdownload is looking for shared libraries as you found out (not sure why they did not compile with static). The .deb files also need older versions of various things that are not there in the latest ubuntu.

[bwubb]

Ok then I will give that a shot. Thank you very much for taking the time to help me.