Hello Will,

Thank you for your reply. I had already checked this thread before as I browsed 
through the mailing list for "pbs_python" issues. It doesn't have the same 
errors (can't locate log.h and when i provide it it wants the container.hpp ) 
and up to one point i've already followed the "rescrambling" of the pbs_python.

Anyone else had any experience with that?

Thank you,
Makis

Date: Tue, 22 Sep 2015 09:35:11 -0700
Subject: Re: [galaxy-dev] pbs_python can't be installed via scramble
From: who...@lygos.com
To: makis4e...@hotmail.com
CC: galaxy-dev@lists.galaxyproject.org

Here is an old thread that looks rather similar to your 
problems:https://www.mail-archive.com/galaxy-dev@lists.galaxyproject.org/msg00078.html

-Will

On Tue, Sep 22, 2015 at 2:43 AM, Makis Ladoukakis <makis4e...@hotmail.com> 
wrote:



Hello everyone,

I'm trying to set up a Galaxy instance on a multi-core server in my university 
so according to the instructions here:

https://wiki.galaxyproject.org/Admin/Config/Performance/Cluster#PBS

I installed Torque, changed the eggs.ini file by adding the 4.4.0. version of 
pbs_python

and tried to setup pbs_python via scramble:

LIBTORQUE_DIR=/usr/local/lib/ python scripts/scramble.py -e pbs_python

When I did that I got the error:

Failed to find log.h in inlcude dir /usr/include/torque. (Set incude dir via 
PBS_PYTHON_INCLUDEDIR variable)
Traceback (most recent call last):
  File "scripts/scramble.py", line 50, in <module>
    egg.scramble()
  File "/home/galaxy/galaxy/lib/galaxy/eggs/scramble.py", line 57, in scramble
    self.run_scramble_script()
  File "/home/galaxy/galaxy/lib/galaxy/eggs/scramble.py", line 210, in 
run_scramble_script
    raise ScrambleFailure( self, "%s(): Egg build failed for %s %s" % ( 
sys._getframe().f_code.co_name, self.name, self.version ) )
galaxy.eggs.scramble.ScrambleFailure: run_scramble_script(): Egg build failed 
for pbs_python 4.4.0

so I did some digging around and found that the file I need is in 

/scripts/scramble/build/py2.7-linux-x86_64-ucs4/pbs_python/src/C++/

(please correct me if I am wrong)

So I tried again using:

 
PBS_PYTHON_INCLUDEDIR=/home/galaxy/galaxy/scripts/scramble/build/py2.7-linux-x86_64-ucs4/pbs_python/src/C++/
 LIBTORQUE_DIR=/usr/local/lib/ python scripts/scramble.py -e pbs_python

but then I got the error:

In file included from src/C++/pbs_ifl.h:90:0,
                 from src/C++/pbs_wrap.cxx:2978:
/usr/local/include/u_hash_map_structs.h:82:25: fatal error: container.hpp: No 
such file or directory
 #include "container.hpp"


Can someone help me please?

Kind regards,
Makis

                                          

___________________________________________________________

Please keep all replies on the list by using "reply all"

in your mail client.  To manage your subscriptions to this

and other Galaxy lists, please use the interface at:

  https://lists.galaxyproject.org/



To search Galaxy mailing lists use the unified search at:

  http://galaxyproject.org/search/mailinglists/


-- 
The information contained in this e-mail message or any attachment(s) may be 
confidential and/or privileged and is intended for use only by the 
individual(s) to whom this message is addressed.  If you are not the intended 
recipient, any dissemination, distribution, copying, or use is strictly 
prohibited.  If you receive this e-mail message in error, please e-mail the 
sender at who...@lygos.com and destroy this message and remove the transmission 
from all computer directories (including e-mail servers).

Please consider the environment before printing this email.
                                          
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/

Reply via email to