Thank you, that fixed it & now I can run Gap4 so I'm very happy.
This was the error I got after running 'export STADEN_DEBUG=1'
load libcopy_reads.so => couldn't load file "libcopy_reads.so":
/usr/lib/libstdc++.so.5: version `CXXABI_1.2' not found (required by
/usr/local/staden-linux-x86_64-1-7-1b/linux-x86_64-bin/../lib/linux-x86_64-binaries/libmutlib.so)
I had linked it to a newer version. So I unlinked & reinstalled libstdc++5
& that seemed to fix my problem.
Thanks again alig
Paul Donohue-4 wrote:
>> I don't see anything in particular in your strace output after a quick
> look.
>> Try running 'export STADEN_DEBUG=1' before running staden, and see what
> that says.
> You can ignore the 'libiwidgets.so' error, but any other errors need to be
> fixed.
>> Note that you can use the 'Search the contents of packages' form at
>http://packages.ubuntu.com/ to figure out the appropriate package to
> install for any missing libraries.
>> Hope that helps.
> -Paul
>> On Thu, Jan 29, 2009 at 06:27:19PM -0800, alig wrote:
>>>> Hi,
>>>> I am trying to install Staden Gap4 on a 64 bit machine with Ubuntu
>> installed.
>>>> It appears that trev & pregap will start. But when I type gap4& I get
>> this
>> message -
>>>> invalid command name "load_alignment_matrix"
>> while executing
>> "load_alignment_matrix [keylget gap_defs ALIGNMENT.MATRIX_FILE]"
>> (file
>> "/usr/local/staden-linux-x86_64-1-7-1b/linux-x86_64-bin/../lib/gap/gap.tcl"
>> line 683)
>>>> I have followed a number of suggestions from this site & others &
>> installed
>> some missing libraries, but still get this message.
>> Have done strace -o output.txt gap4 and not sure of any more errors in
>> that
>> file.
>> I will try to attach the file
>>http://www.nabble.com/file/p21740409/output.txt output.txt
>>>> Can anyone help please
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