Staden 1.5

Nic nicolas.bertrand at gmail.com
Wed Jan 5 12:03:44 EST 2005


Hello,

We are having some problems with gap4 in staden 1.5 on one server.

Upon launchin gap4, the following error message is returned:
gap4
invalid command name "load_alignment_matrix"
while executing
"load_alignment_matrix       [keylget gap_defs ALIGNMENT.MATRIX_FILE]"
(file "/usr/local/bioinf/staden/staden/lib/gap/gap.tcl" line 674)
OS is Debian Linux version 3.0

Environment pertinent to staden is as follows:
STADENROOT=/usr/local/bioinf/staden/staden
STADENROOT_1_5=/usr/local/bioinf/staden/staden
LD_LIBRARY_PATH=/usr/local/bioinf/staden/staden/lib/linux-binaries:/usr/local/bioinf/EMBOSS/EMBOSS/emboss/lib:/usr/local/bioinf/arb/arb/lib
TCL_LIBRARY=/usr/local/bioinf/staden/staden/lib/tcl
TK_LIBRARY=/usr/local/bioinf/staden/staden/lib/tk
Any pointers/suggestions would be greatly appreciated.

Nic




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