one-time solution: In the terminal from which you want to start the program, type export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/path/of/directory/which/contains/thelib then start the program.
This is valid for a POSIX-compliant shell (bash, ksh, zsh, sh,...).
If you use (t)csh, the syntax is different, probably something like
set LD_LIBRARY_PATH $LD_LIBRARY_PATH:/path/of/directory/which/contains/thelib
but [flame] you shouldn't use tcsh, it's outdated - the welcome page of tcsh.org
was last edited nearly six years ago[/flame] (don't take this comment seriously
unless you like nerdish flame wars - I hope someone on the list does ;-) )
long-term solution:
a) put the above command into your shell's start-up script
b) ask the author of the program or whoever compiled it to use the switch
'-static-intel'. This doesn't alter the functionality of the program and makes
it independent of the intel libraries which most people (notably non-developers)
probably don't have on their system.
Cheers, Tim
On Fri, Apr 30, 2010 at 12:53:49PM -0600, Maia Cherney wrote:
> Hi bb,
>
> when I try to run al3 (align) I get the error message
> error while loading shared libraries: libcxa.so.5: cannot open shared
> object file: No such file or directory
>
> In fact, this file exists. How can I tell al3 where to look for this file?
>
> Maia
>
> Ed Pozharski wrote:
>> On Fri, 2010-04-30 at 13:35 +0100, Nicholas Keep wrote:
>>
>>> If anyone has a piece of software that would do this it would be
>>> great.
>>>
>>>
>>
>> How about this (this is a single line)
>>
>> ---
>> grep 'ATOM\|HETATM' file1.pdb file2.pdb |grep -v REMARK | cut -d: -f 2 |
>> cut -c 13-54 | sort | awk 'BEGIN {FIELDWIDTHS = "14 28"; pt=""} {if(pt==
>> $1) print pr,$2; pt=$1; pr=$0;}' | awk 'BEGIN {FIELDWIDTHS = "14 4 8 8 8
>> 5 8 8 8"} {printf "%s %8.4f\n",$1,sqrt(($3-$7)^2+($4-$8)^2+($5-$9)^2);}'
>> | awk 'BEGIN {FIELDWIDTHS = "4 1 3 1 1 5 9"} {printf "%s %s %s %s %s\n",
>> $3,$5,$6,$1,$7;}'
>> ---
>>
>> The output is not sorted (sort isn't friendly to the idea of sorting
>> alphabetically and numerically at the same time). And "awk" means
>> "gawk" - "mawk" (Ubuntu default) doesn't allow fixed field selection
>> which is key to dealing with files that have alternate conformers).
>>
>> HTH,
>>
>> Ed.
>>
>>
--
--
Tim Gruene
Institut fuer anorganische Chemie
Tammannstr. 4
D-37077 Goettingen
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