[Staden] Re: gap4 running problem load_alignment_matrix gap.tcl

[Derek Litthauer]

Hi
I have installed staden on one of my 64 bit machines with Centos5.
After some pain, it runs beautifully. Attempting installation on a
second machine (actually just copying the appropriate dierctory
containing the staden packege to the new machine) which is (supposed to
be) similar to the first one I get.

invalid command name "load_alignment_matrix"
while executing
"load_alignment_matrix [keylget gap_defs ALIGNMENT.MATRIX_FILE]"
(file "/usr/local/staden-linux-x86-1-7-0//lib/gap/gap.tcl" line
683)
Running in debug mode some libraries are identified as not loading but
they are there. Have followed the advice given in various forum pages,
including http://www.bio.net/bionet/mm/staden/2006-January/001358.html
doing strace -o output.txt gap4 as suggested, and looking at the
resulting file does not make sense to me. The file is attached. Can you
look at it and help, please. DerekLDerek Litthauer (PhD)
BioPAD Metagenomics Platform
Department of Microbial, Biochemical and Food Biotechnology
Faculty of Natural and Agricultural Sciences
Internal Postbox 61
University of the Free State
PO Box 339
Bloemfontein
SOUTH AFRICA
Tel: +27 51 4012122
Fax: +27 51 4443219
http://www.uovs.ac.za/biotech

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