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week 46.2016 mpi comlie error: unrecognized command line option "-std=c++11"

Submitted by msardejani on Thu, 2016-12-01 14:22
Category: 
Compilation

Hi, 

I am trying to compile weekly build 46.2016 using "./scons.py bin -j3 mode=release extras=mpi"  and get this error:

error: unrecognized command line option "-std=c++11"

My gcc and g++ version is 4.8.2 20140120 (Red Hat 4.8.2-15). Any idea why this is happening? Any suggestion is highly appreciated.

 

Thanks!

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Rosetta 3 - Build/Install

Error compiling on ubuntu 16.04

Submitted by SenyorDrew on Wed, 2016-11-30 13:26
Category: 
Compilation

Hi,

I'm having trouble compiling PyRosetta on Ubuntu 16.04 64-bit

Rosetta version is: rosetta_src_2016.46.59086_bundle

gcc version is 5.4.0

Python version is 2.7.12

Initially I set up PyRosetta for compilation by executing "DeployPyRosetta.py" in  "tools/PyRosetta.develop".  I ran into an issue compiling gccxml, and added the flag "-DCMAKE_C_FLAGS=-fgnu89-inline" to the DeployPyRosetta.py script to get the setup script to run to completion.

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PyRosetta - Build/Install

mpi installation issues

Submitted by banshee on Tue, 2016-10-04 18:48
Category: 
Compilation

hi all

i am trying to build mpi version of rosetta 3.7 on a machine with redhat linux (I have no problem installing on Ubuntu). I copied the topsail site.settings file and commented out the path to INCLUDE because initially rosetta complained about no INCLUDE parameter.

I compile by using scons(scons -j8 bin mode=release extras=mpi) and the compiling ends fine, no error, no stalling, but when i execute the executables (for instance fixbb) i get the  message below:

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Rosetta 3 - Build/Install

'MPI' has not been declared

Submitted by starone on Wed, 2016-09-21 07:49
Category: 
Compilation

Hello,

I have built the MPI binaries many times without issue... until now.  I have two machines with the same Ubuntu build, openmpi, and site.settings file on them.  The build goes fine on one, but fails on the other (I did the openmpi installation tests and they succeed).

In the build output I see: "'MPI' has not been declared".   Below is more of the output... thank you very much in advance for your time!

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Rosetta 3 - Build/Install

Rosetta remodel on intel Xeon Phi

Submitted by pablogalazdavison on Wed, 2016-09-14 15:35
Category: 
Compilation

Greetings, I am planning to use Rosetta Remodel very soon, and as I am designing a system to do so, I found myself wondering if I could use the xeon phi coprocessor's cores to increase output. I believe it can be done with mpi, but I am uncertain about that, performance and how difficult the setup would be.
Also, about how many RAM is required per core? I remember that certain steps in remodel protocol require quite an amount of RAM, and the Xeon Phi I am trying to get hands on is 8GB for 60 cores.
Any insights is really appreciated.

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Rosetta 3 - General

Error during scons building

Submitted by Jhreed on Tue, 2016-07-26 08:20
Category: 
Compilation

I've been trying to build the latest weekly release (2016.20), and after starting scons using:

external/scons-local/scons.py -j3 mode=release bin 

from the source directory, everything will be fine for around 2h, but then I get this error:

/usr/bin/ld: cannot find -lz
collect2: error: ld returned 1 exit status
scons: *** [build/src/release/linux/3.2/64/x86/gcc/4.7/default/libObjexxFCL.so] Error 1
scons: building terminated because of errors.

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Rosetta 3 - Build/Install

Compiling problems in rosetta 2016.20

Submitted by SergeyP on Tue, 2016-07-19 07:59
Category: 
Compilation

Hello, everyone!

I have some problems while compiling rosetta_src_2016.20.58704 source code both in my desktop and cluster.
Compilers: gcc 6.1.1 & gcc 4.9.3
Compiling with make:
./make_project.py all
cd build_release
cmake ./
make -j 8

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Rosetta 3 - Build/Install

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