Re: [easybuild] Next EasyBuild conf call: Wed Oct 31st, 5pm CEST

[Vanzo, Davide]

Dear EasyBuilders,

Notes on today's conf call are available at
https://github.com/easybuilders/easybuild/wiki/Conference-call-notes-20181031

Info regarding the Next conf call will arrive as soon as our BDFL will plan our 
lives.

Best regards
--
Davide Vanzo, PhD
Application Developer
Adjunct Assistant Professor of Chemical and Biomolecular Engineering
Advanced Computing Center for Research and Education (ACCRE)
Vanderbilt University - Hill Center 201
(615)-875-9137
www.vanderbilt.edu/accre


On 2018-10-30 12:01:47-05:00 easybuild-requ...@lists.ugent.be wrote:

Dear EasyBuilders,
The 113th EasyBuild conf call is planned for tomorrow, Wed 31 Oct 2018, at 
17:00 CEST, see
https://plus.google.com/events/c6fgrmjuqigogsq5fghdn2cit48<https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fplus.google.com%2Fevents%2Fc6fgrmjuqigogsq5fghdn2cit48%3Fauthkey%3DCPCUquXw4vK0_wE=02%7C01%7Cdavide.vanzo%40vanderbilt.edu%7C587b21cde02b46cd6f8808d63e895f31%7Cba5a7f39e3be4ab3b45067fa80faecad%7C0%7C0%7C636765157063925908=iYuT2GuVz9k2PTW%2BREssumOwcxwEQTsxzs8P5pz78dk%3D=0>

Current agenda:
* Q
Suggestions for additional topics are welcome.
More information on the EasyBuild conf calls is available at
https://github.com/easybuilders/easybuild/wiki/Conference-calls .
Best regards

--
Davide Vanzo, PhD
Application Developer
Adjunct Assistant Professor of Chemical and Biomolecular Engineering
Advanced Computing Center for Research and Education (ACCRE)
Vanderbilt University - Hill Center 201
(615)-875-9137
www.vanderbilt.edu/accre

Re: [easybuild] Java module - how to use?

[Kenneth Hoste]

On 29/10/2018 20:26, Åke Sandgren wrote:

And to get the Java/1.8 to pick that up, you need to rebuild Java-1.8.eb
with the new version number.


See also 
https://github.com/easybuilders/easybuild-easyconfigs/pull/7097, where 
the Java/1.8 wrapper is updated in place to Java 1.8.0_192.



regards,

Kenneth


On 10/29/18 7:27 PM, Jack Perdue wrote:

Ooops... just noticed you said _191/2 not _181.

In that case, you might try:

   eb --try-software-version=1.8.0_192 (wherever)/Java/Java-1.8.0_181.eb

to bump the version.

jack



On 10/29/18 1:22 PM, Jack Perdue wrote:

Howdy Joachim,

The file you need is jdk-8u181-linux-x64.tar.gz
You should be able to find in archive/oldversions link
at Oracle site.  Put that in your normal EB j/Java
SOURCEDIR.

EB uses .modulerc to do "magic" behind the scenes
to change the subversions for Java non underscored
versions now.

Wasn't the method I suggested and I don't much care
for the .modulerc magic but at least it is a step in
some direction to address the problem (keeping
Java version numbers upgradeable).

I recall getting errors indicating problems with the new
setup but it seemed to have done most of the what
it needed to.

HIH,

Jack Perdue
Lead Systems Administrator
High Performance Research Computing
TAMU Division of Research
j-per...@tamu.edu    http://hprc.tamu.edu
HPRC Helpdesk: h...@hprc.tamu.edu

On 10/29/18 8:20 AM, Joachim Hein wrote:

Hi,

I tried to search for documentation regarding the new Java handling.
  All I found is
https://easybuild.readthedocs.io/en/latest/Wrapping_dependencies.html?highlight=java
,
which doesn’t quite tell me how I should do this.

This is the first time I want to install software using the new Java
1.8 module wrapper.   As supplied with EB 3.7.1, it want’s to build
Java /1.8.0_181, with the tar ball no longer available a the oracle
website.  I can currently get 8u191 and 8u192.  How is that now
supposed to work in a “future” proof way.

If I create a java 1.8 in my local directory, pointing to 8u192, it
will overrule any future updates (incl bug fixes) to Java 1.8 that
come with future EB releases.  (I got burned by old develop version
overruling fixed version inside EB in the past).

Any pointers/ideas on how this should be done?  -thanks-

Best wishes
    Joachim

Re: [easybuild] OpenFOAM and SCOTCH in foss/2018b

[Joachim Hein]

I put an issue ticket: 
https://github.com/easybuilders/easybuild-easyconfigs/issues/7093 as well.

J.

On 31 Oct 2018, at 11:17, Joachim Hein 
mailto:joachim.h...@math.lu.se>> wrote:

Hi

I installed OpenFOAM-v1806-foss-2018b.eb using SCOTCH-6.0.5-foss-2018b.eb.   A 
user reported:

I was testing the new OF1806 installation by running one of the tutorials. I 
found the following error message in the snappyHexMesh logfile:

ERROR: SCOTCH_dgraphInit: Scotch compiled with SCOTCH_PTHREAD and program not 
launched with MPI_THREAD_MULTIPLE

I have a rough idea on things to look into here, but has anyone else seen this, 
who can provide pointers?

I checked that out OpenMPI in foss/2018b believes to be MPI_THREAD_MULTIPLE 
enabled (using ompi_info | grep -i thread)

Thanks Joachim

[easybuild] OpenFOAM and SCOTCH in foss/2018b

[Joachim Hein]

Hi

I installed OpenFOAM-v1806-foss-2018b.eb using SCOTCH-6.0.5-foss-2018b.eb.   A 
user reported:

I was testing the new OF1806 installation by running one of the tutorials. I 
found the following error message in the snappyHexMesh logfile:

ERROR: SCOTCH_dgraphInit: Scotch compiled with SCOTCH_PTHREAD and program not 
launched with MPI_THREAD_MULTIPLE

I have a rough idea on things to look into here, but has anyone else seen this, 
who can provide pointers?

I checked that out OpenMPI in foss/2018b believes to be MPI_THREAD_MULTIPLE 
enabled (using ompi_info | grep -i thread)

Thanks Joachim