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Compilation

Linux Ubuntu build is missing Dynamically Linked Libraries (fail during unit test)

Category: 
Compilation

 Hello,

I've installed Rosetta 3.11 for Linux ubuntu 16.04 without any failure.

However, I encountered some missing binaries after running unit tests. This is the general command I use for the unit test.

python scons.py -j #numproc mode=debug cat=test

 

The snippet below is the output returned from the unit test.

Post Situation: 

rosetta mpi build

Category: 
Compilation

I'm trying to build rosetta with mpi and found that because of file `src/utility/crash_report.cc` line 178 lacks semicolon at the end of the line it fails to build.

This happens with version 3.11 and 2019.40 (latest).

And I want to ask that is it able to build rosetta with cmake?

I'm currently trying to build by cmake at directory `cmake/build_sharedmpi` with ninja and intel compiler but it fails to build.

Is there any suitable compiler for the build?(maybe gcc?)

 

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Rosetta Install, I Am Perplexed

Category: 
Compilation

I am having an interesting time trying to compile/install the source. I obtained an academic license, and downloaded the latest stable release, but it refuses to compile.

 

Specs/Details/Code:

Ubuntu 18.04.1

Rosetta 2019.35/31 ( I have tried both )

From terminal I run:

~$: cd my/rosetta/dir/main/source

Post Situation: 

Can I use rosetta binaries built in one linux system to another linux system?

Category: 
Compilation

Dear Friends,

 

I have successfully built "mpi" binaries on my ubuntu 18.04. I want to run rosetta on my centos6.9 (with "Openmpi") machine too; can I simply copy the binaries from my ubuntu to centos  and run rosetta using "mpi" there? thank you!

 

 

Post Situation: 

Error when installing rosetta on centos6.9?

Category: 
Compilation

Dear Friends,

 

I am trying to install rosetta on centos 6.9 as a non-root user. Python version is 2.7. OPenmpi is installed too. But, when I run this below command I get this error: (it's the end section of the error)

Post Situation: 

How to uninstall and install rosetta using "extras=mpi'?

Category: 
Compilation

Dear Friends,

 

I compiled rosetta using :

 

./scons.py -j <number_of_cores_to_use> mode=release bin

But, since I have 20 cores, and I want to distribute the runs across all cores, I want to use "MPI" options. Could you please let me know how can I uninstall and install rosetta using "MPI" option? thanks@!

Post Situation: 

how to find help informations on rosetta_scripts in rosetta3.10

Category: 
Compilation

Hi,

I am just learning how to use rosetta_scripts and I do not know how to find some descriptions on example xml and its contents in rosetta suit. I am wondering whether anyone can help out. I would much appreciated.

I want to find some help information on the alanine_scan.xml. 

Post Situation: 

how to restore "rosetta_scripts.default.linuxgccrelease"

Category: 
Compilation

Hi,

I have rosetta installed but when using it I accidently deleted rosetta_scripts.default.linuxgccrelease. I am wondering how I can get it back. Can anyone help me, please?

Thank you very much.

Jinyan

 

Post Situation: 

debug rosetta_scripts FunFolDes run

Category: 
Compilation

I'm running a FunFolDes and it works for one protein, but outputs segmentation fault on other three. I checked all the proteins contain standard amino acids, no cys.

Admin installed debug version on our cluster and said to run ml rosetta/2019.14.debug, but i can't find anywhere how to run debug version.

i was running 

Post Situation: 

Where to find old version of Rosetta with git version number

Category: 
Compilation

Hi, there:
    I am reading some papers using Rosetta for modeling work. In the papers, they mentioned rosetta git version number. I am just wondering  if anyone can tell me where I can find some old version of rosetta according to git version number. Thank you very much for your help.

 

Best,

Mao

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