You are here

Home

Compilation

Installation went well but the unit tests crashed; Some of the unit test suite terminate abnormally!

Submitted by KarolinaM on Wed, 2022-02-09 00:51
Category: 
Compilation

Dear Rosetta Users,

I'm new to Rosetta and fall into some errors when tried to test the installation.
I downloaded version 3.13 for Linux system. Then I did the installation according to the tutorial:
I extracted the binary
tar -xvzf rosetta_bin_linux_3.13_bundle.tgz
cd rosetta_bin_linux_2021.16.61629_bundle/main/source
Since I have 12 cores I did and wanted to have MPI version of Rosetta
./scons.py -j 12 mode=release bin extras=mpi
The installation went smooth and I haven't got any error messages.

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

compiler option not found

Submitted by stranges on Wed, 2021-12-08 10:28
Category: 
Compilation

Hi all,

I recently had to update my OSX command line tools and in doing so went from clang 12.0 to 13.0

I'm trying to compile Rosetta build 2021.16.61629 and am running into an issue. I was previously able to compile fine with clang v12.0.

As far as I can tell there seems to be an issue with the -rpath option, but that doesn't make much  sense. See the fail point and error messages below.

Not sure if this is a zlib issue given the fail point. As far as I can tell I have zlib installed properly. 

 

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Downloading Rosetta weekly release

Submitted by ozsolomon on Mon, 2021-11-29 13:57
Category: 
Compilation

Hi guys,

I tried to download the most recent release of Rosetta.

However, from what I checked on this website the last one is of September 2021

(Rosetta 2021.38 : https://www.rosettacommons.org/downloads/academic/2021/wk38/).

Is there more recent version?

I guess the weekly relases can be downloaded from somewhere else ?

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Error when using rna_denovo in TACC stampede2 HPC

Submitted by lsong2 on Thu, 2021-11-18 10:31
Category: 
Compilation

Hi,

I'm totally new to using Rosetta and TACC. when I tried to use rna_denovo.cxx11mpi.linuxiccrelease in TACC, it pops up an error:

" protocols.jd3.JobDistributorFactory: (0) [ ERROR ] JD3 cannot be used with MPI but without serialization; you must add "extras=mpi,serlization" to your ./scons.py build command "

I did some search on the forum and one suggested using another program with a different extension, but TACC only have "cxx11mpi.linuxiccrelease" version.

Thank you for your input.

 

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - General

Error in compilation with rosetta.build_phenix_interface

Submitted by vcalderone on Fri, 2021-10-29 22:35
Category: 
Compilation

I have installed the last version of phenix ( phenix-1.20rc2-4400) and then I have tried to compile the last weekly version of rosetta (rosetta_src_2021.07.61567_bundle) with 'rosetta.build_phenix_interface nproc=8'

The machine is Fedora 34 with gcc -v:

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Error when testing rosetta.run_tests

Submitted by biomics on Thu, 2021-10-28 23:01
Category: 
Compilation

Hello,

I have tried to install Rosetta (version 3.11) for use in Phenix (version 1.19.2) on ubuntu 18.04. No problem with Phenix installation and rosetta.build_phenix_interface nproc=24, but when I run rosetta.run_tests, I got the following. 

==

Generating 2 models on 1 processors...

DEBUG dumping error message
ERROR: Rosetta exited with status 139
stderr output:

AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Compatibility with raspberry pi 4 cpu architecture

Submitted by ahmad on Fri, 2021-10-01 12:16
Category: 
Compilation

Hello,

I have a raspberry pi 4B. I was trying to build Rosetta using Scon and it returned the following error:

`KeyError: "Processor 'aarch64' with machine designation 'aarch64' is unsupported."`

I would like to make sure if rosetta is truely incompatible with the raspberry pi processor. If yes, why BOINC rosetta@home is able to run tasks on the same device?

I must note that I changed the kernel to 64-bit and I tried to use raspbian-nspawn-64 that provide the ability to run 64-bit software on 32-bit os.

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Error arises when installing rosetta_src_2021.16.61629_bundle with scon

Submitted by Sunyp_IM on Tue, 2021-09-28 08:08
Category: 
Compilation

Dear all,

   I am trying to install rosetta_src_2021.16.61629_bundle in CentOS system (Python 3.8.8) using:

         ./scons.py -j8 mode=release bin

   However, it produces the following error:

         AssertionError: Parameters of BuildFlags must be lists
         scons: done reading SConscript files.
         scons: Building targets ...
         scons: `bin' is up to date.
         scons: done building targets.

Post Situation: 
Unsolved
Forums: 
Rosetta 3 - Build/Install

Compilation and unit test failures

Submitted by kjs1728 on Wed, 2021-09-01 22:09
Category: 
Compilation

Hi all,

I installed Rosetta 3.13 in KISTI supercomputor 5 (Nurion) (https://www.ksc.re.kr/eng/index/main).

And, I ran the unit tests. It is showing 85% success rate. 

Below is what I did and I have attached the relevant documents.

$ cd rosetta/main/source

$ module purge

$ module load craype-network-opa python/2.7.15 gcc/8.3.0 mvapich2/2.3.1 craype-mic-knl

Post Situation: 
Solved
Forums: 
Rosetta 3 - Build/Install

Pages

Subscribe to RSS - Compilation