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nufeb / NUFEB

Official release of the NUFEB software
http://research.ncl.ac.uk/nufeb/
GNU General Public License v3.0
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Issue with compiling NUFEB on Mac OSX (10.13.4) #1

Closed MI-SIM closed 6 years ago

MI-SIM commented 6 years ago

I am trying to compile the latest version of NUFEB on Mac High Sierra following the Readme instructions.

  1. In STUBS I get the following Warning messages:

g++ -O -fPIC -c mpi.c clang: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated [-Wdeprecated] mpi.c:114:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ 1 warning generated. ar rs libmpi_stubs.a mpi.o ar: creating archive libmpi_stubs.a

  1. Then when compiling in src, using make serial:

**../../src/molecule.h:14:9: warning: 'LMP_ONE_MOLECULE_H' is used as a header guard here, followed by #define of a different macro [-Wheader-guard]

ifndef LMP_ONE_MOLECULE_H

    ^~~~~~~~~~~~~~~~~~

../../src/molecule.h:15:9: note: 'LMP_ONE_MOLEUCULE_H' is defined here; did you mean 'LMP_ONE_MOLECULE_H'?

define LMP_ONE_MOLEUCULE_H**

This is fixed by correcting the spelling of MOLECULE in molecule.h

  1. An error message is also generated:

*g++ -std=c++0x -O -pg -DLAMMPS_GZIP -I../../src -I../STUBS -M ../finish.cpp > finish.d g++ -std=c++0x -O -pg -DLAMMPS_GZIP -I../../src -I../STUBS -c ../finish.cpp ../finish.cpp:574:40: error: ordered comparison between pointer and zero ('int ' and 'int') if (neighbor->lists[m]->numneigh > 0) {**

This issue I cannot resolve and may be linked to warning 1.

Please advise.

Thanks, Matt

shelllbw commented 6 years ago

Hi Matt,

We haven't tested the code on Mac, but please try with the latest version in https://github.com/shelllbw/nufeb repository. The instruction for compilation is in code/doc/nufeb3.0-manual/ dir. Basically, you will need to have openmpi library installed and then in src/ $ make yes-user-nufeb $ make yes-granular $ make -j4 mpi Let me know if it still does not work.

Bowen

MI-SIM commented 6 years ago

Thanks Bowen,

Had some issues with installing openmpi, but once I have sorted that will let you know.

Best matt

From: Bowen Li notifications@github.com Reply-To: nufeb/NUFEB reply@reply.github.com Date: Friday, 22 June 2018 at 09:03 To: nufeb/NUFEB NUFEB@noreply.github.com Cc: Matthew Wade matthew.wade@newcastle.ac.uk, Author author@noreply.github.com Subject: Re: [nufeb/NUFEB] Issue with compiling NUFEB on Mac OSX (10.13.4) (#1)

Hi Matt,

We haven't tested the code on Mac, but please try with the latest version in https://github.com/shelllbw/nufeb repository. The instruction for compilation is in code/doc/nufeb3.0-manual/ dir. Basically, you will need to have openmpi library installed and then in src/ $ make yes-user-nufeb $ make yes-granular $ make -j4 mpi Let me know if it still does not work.

Bowen

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHubhttps://github.com/nufeb/NUFEB/issues/1#issuecomment-399435132, or mute the threadhttps://github.com/notifications/unsubscribe-auth/AQYf_ASZ8ua1hTokH2F4PnIsn7d5vxXgks5t_Or-gaJpZM4Uylt-.

MI-SIM commented 6 years ago

Bowen,

Attached is a screenshot of the error message I get when performing the final make step.

Seems mpi related

matt

From: Bowen Li notifications@github.com Reply-To: nufeb/NUFEB reply@reply.github.com Date: Friday, 22 June 2018 at 09:03 To: nufeb/NUFEB NUFEB@noreply.github.com Cc: Matthew Wade matthew.wade@newcastle.ac.uk, Author author@noreply.github.com Subject: Re: [nufeb/NUFEB] Issue with compiling NUFEB on Mac OSX (10.13.4) (#1)

Hi Matt,

We haven't tested the code on Mac, but please try with the latest version in https://github.com/shelllbw/nufeb repository. The instruction for compilation is in code/doc/nufeb3.0-manual/ dir. Basically, you will need to have openmpi library installed and then in src/ $ make yes-user-nufeb $ make yes-granular $ make -j4 mpi Let me know if it still does not work.

Bowen

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHubhttps://github.com/nufeb/NUFEB/issues/1#issuecomment-399435132, or mute the threadhttps://github.com/notifications/unsubscribe-auth/AQYf_ASZ8ua1hTokH2F4PnIsn7d5vxXgks5t_Or-gaJpZM4Uylt-.

shelllbw commented 6 years ago

Hi Matt, I cannot find your attachment here. Could you resend it via email please. Bowen

MI-SIM commented 6 years ago

Bowen,

I sent the reply to your normal e-mail address as I got failed delivery notifications about message being too large on the nufeb address/github Let me know if you get it Regards matt

From: Bowen Li notifications@github.com Reply-To: nufeb/NUFEB reply@reply.github.com Date: Sunday, 24 June 2018 at 06:45 To: nufeb/NUFEB NUFEB@noreply.github.com Cc: Matthew Wade matthew.wade@newcastle.ac.uk, Author author@noreply.github.com Subject: Re: [nufeb/NUFEB] Issue with compiling NUFEB on Mac OSX (10.13.4) (#1)

Hi Matt, I cannot find your attachment here. Could you resend it via email please. Bowen

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHubhttps://github.com/nufeb/NUFEB/issues/1#issuecomment-399747117, or mute the threadhttps://github.com/notifications/unsubscribe-auth/AQYf_Cdj5xYGA9M9u-jl1HD2Vtx7UfC0ks5t_23NgaJpZM4Uylt-.