Thanks dac,
I'll give that a go. Another issue is that when I make I'm getting
permissions errors relating to other folders now, see error message
below. Do I just have to go through all those Makefile files and change
cp -p to mv like before?
cp -p matextract matgen matmerge matmul \
transform tss_init tss_main \
tss_next /homes/acd/amber11/bin
cp: preserving permissions for `/homes/acd/amber11/bin/matextract':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/matextract': Operation
not supported
cp: preserving permissions for `/homes/acd/amber11/bin/matgen':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/matgen': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/matmerge':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/matmerge': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/matmul':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/matmul': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/transform':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/transform': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/tss_init':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/tss_init': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/tss_main':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/tss_main': Operation not
supported
cp: preserving permissions for `/homes/acd/amber11/bin/tss_next':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/bin/tss_next': Operation not
supported
make[1]: [install] Error 1 (ignored)
cp -p libsym.a /homes/acd/amber11/lib
cp: preserving permissions for `/homes/acd/amber11/lib/libsym.a':
Operation not supported
cp: preserving ACL for `/homes/acd/amber11/lib/libsym.a': Operation not
supported
make[1]: [install] Error 1 (ignored)
make[1]: Leaving directory `/homes/acd/amber11/src/nss'
Thanks!
Anna
case wrote:
> On Wed, Mar 03, 2010, Anna Dejardin wrote:
>
>> I tried replacing cp -p with mv in the Makefile. But now when I run
>> tests it seems to stop short and the final message it prints is this error:
>>
>> cd antechamber/top2mol2 && ./Run.top2mol2
>>
>> Cannot open atom type corresponding file
>> /homes/acd/amber11:/dat/antechamber/ATOMTYPE_CHECK.TAB, exit
>>
> ^^^^^^^^^
>
> The error message is pretty clear (by Amber standards!). It can't find
> the file in question, which is not surprising, since it has a ":" in its
> name. My best guess is that your AMBERHOME variable is incorrect, probably
> set to "/homes/acd/amber11:" rather than "/homes/acd/amber11".
>
> See if that helps....dac
>
>
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Received on Wed Mar 03 2010 - 06:30:03 PST
