NEW: NEURON

[neurodroid (Christoph Schmidt-Hieber)]

​NEURON is a simulation environment for neurons and networks of neurons that is ​widely used in neuroscience. Some comments on the Portfiles:

• A separate port is required for the graphics toolkit (neuron-iv) because it's optional (neuron has a +nogui variant), the source changes more rarely than neuron's, and it's under a different license.
• The source tarballs are currently hosted on a mirror because the the version on the ​official server may change its url at any time.
• The patch that comes with this Portfile has been ​accepted upstream and will be included in the upcoming version 7.4.

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for the NEURON graphics toolkit (based on InterViews)

[ryandesign (Ryan Carsten Schmidt)]

Variants whose names begin with "no" are deprecated and should not be added to new ports. Instead, if there must be a variant, name it "gui" and enable it by default.

[neurodroid (Christoph Schmidt-Hieber)]

Replying to ryandesign@…:

Variants whose names begin with "no" are deprecated and should not be added to new ports. Instead, if there must be a variant, name it "gui" and enable it by default.

Thanks for your review. A revised Portfile is attached.

To make the binaries directly executable without prefix, I was thinking to add the following to post-destroot:

ln -s ${applications_dir}/NEURON/nrn/${arch}/bin/* ${destroot}${prefix}/bin/

Is there a better way to achieve this?

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON

[ryandesign (Ryan Carsten Schmidt)]

"destroot.destdir DESTDIR=${destroot}" is the default so it should be removed.

Why does neuron-iv set prefix to ${applications_dir}? It doesn't install any OS X application bundles there. It just installs headers, binaries and libraries which would seem to be more at home in ${prefix}.

[neurodroid (Christoph Schmidt-Hieber)]

Replying to ryandesign@…:

"destroot.destdir DESTDIR=${destroot}" is the default so it should be removed.

Fixed in the revised Portfiles.

Why does neuron-iv set prefix to ${applications_dir}? It doesn't install any OS X application bundles there. It just installs headers, binaries and libraries which would seem to be more at home in ${prefix}.

NEURON has somewhat ​unusual installation habits. The default prefix for source installations and binary installers is /Applications/NEURON/iv. Coming from a previous installation, users will expect neuron-iv to reside in NEURON's application directory rather than in ${prefix}.

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for the NEURON graphics toolkit (based on InterViews)

[larryv (Lawrence Velázquez)]

Replying to christsc@…:

NEURON has somewhat [​http://www.neuron.yale.edu/neuron/download/compilestd_osx#ivandnrn unusual installation habits]. The default prefix for source installations and binary installers is /Applications/NEURON/iv. Coming from a previous installation, users will expect neuron-iv to reside in NEURON's application directory rather than in ${prefix}.

Maybe you could install to ${prefix} and symlink into ${applications_dir}?

[neurodroid (Christoph Schmidt-Hieber)]

Replying to larryv@…:

Replying to christsc@…:

NEURON has somewhat [​http://www.neuron.yale.edu/neuron/download/compilestd_osx#ivandnrn unusual installation habits]. The default prefix for source installations and binary installers is /Applications/NEURON/iv. Coming from a previous installation, users will expect neuron-iv to reside in NEURON's application directory rather than in ${prefix}.

Maybe you could install to ${prefix} and symlink into ${applications_dir}?

Given that none of neuron-iv's headers, binaries and libraries will be used by any port other than NEURON, wouldn't it be cleaner not to install anything in ${prefix}? This would also avoid any potential file naming collisions. See original post why neuron-iv still needs to be a separate port.

[neurodroid (Christoph Schmidt-Hieber)]

I've updated the Portfiles to work on OS X 10.9. The patch has made into the repository and is not required any longer. Please let me know what remains to be done to get this into MacPorts.

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for the NEURON graphics toolkit (based on InterViews)

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON - updated to work with new *-default versions of mpi

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON - build fixes, py34 support

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON - updated to 7.4

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON - updated to 7.4 (clarified file name)

[neurodroid (Christoph Schmidt-Hieber)]

Portfile for the NEURON graphics toolkit (based on InterViews) - updated to IV 19

[neurodroid (Christoph Schmidt-Hieber)]

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[neurodroid (Christoph Schmidt-Hieber)]

Portfile for NEURON (py35 support, updated to rel 1370)