[chimera-dev] ChimeraX

Mon Apr 10 17:32:37 PDT 2017

Hi Tom,

I am planning to use the h5py library.

Referring to the email 1/13/17, I was wondering what would be the best route.

Looking at the h5py website:     http://docs.h5py.org/en/latest/build.html

not sure if I should go with a preconfigured or the source install. pre-configured is what they recommend, I not making any changes for Mac, but not clear if I should do this for chimera.

Looking at the download area, https://pypi.python.org/pypi/h5py/2.7.0

the python library is in whl format

Matthew Dougherty
National Center for Macromolecular Imaging
Baylor College of Medicine
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From: Tom Goddard <goddard at sonic.net>
Sent: Friday, January 13, 2017 8:38:56 PM
To: Dougherty, Matthew T
Cc: chimera-dev at cgl.ucsf.edu
Subject: Re: [chimera-dev] ChimeraX

Hi Matt,

  There is some information about how to install Python packages with Chimera in the programming FAQ

https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/faq.html#q3b<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.cgl.ucsf.edu_chimera_docs_ProgrammersGuide_faq.html-23q3b&d=DwMFaQ&c=ZQs-KZ8oxEw0p81sqgiaRA&r=lEMX2_AJ6Iksc5dFd0-VOg&m=s5qAVmF9zmMDL9NYLkHBPGWH46D1Q7DG_mOEXbHpQ4w&s=h0s58KLyIgJOslR1p0LWNV4MNf5XxvgSXy72X8XFL10&e=>

but I believe Eric here said the suggested approach to doing pip install no longer works. A more hacky approach is to simply copy site-packages/Mido (or whatever the module is called) from your system installed version into the Chimera Python site-packages (in chimera/lib/python2.7/site-packages or Chimera.app/Contents/Resources/lib/python2.7/site-packages on Mac).

Tom

On Jan 13, 2017, at 2:26 PM, Dougherty, Matthew T <matthewd at bcm.edu<mailto:matthewd at bcm.edu>> wrote:

I have looked around at python midi packages.
I think I can get around modifying the tk/qt event loops by polling the midi port.

I did a pip install of 'Mido' on my Mac laptop for testing using the OSx python environment.

To install the Mido library into chimera, what do you recommend?

Matthew Dougherty
National Center for Macromolecular Imaging
Baylor College of Medicine
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________________________________
From: Tom Goddard <goddard at sonic.net<mailto:goddard at sonic.net>>
Sent: Monday, November 21, 2016 12:53:04 PM
To: Dougherty, Matthew T
Cc: chimera-dev at cgl.ucsf.edu<mailto:chimera-dev at cgl.ucsf.edu>
Subject: Re: [chimera-dev] ChimeraX

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Hi Matt,

  The way to use MIDI in ChimeraX would be to include a MIDI / Qt5 library.  Qt5 is the window toolkit used by ChimeraX and it controls the receiving of events from devices.  I don’t know of an adequate Qt / MIDI library exists.  Really we would want PyQt5 / MIDI since all Qt in ChimeraX is done in Python.  The top Qt / MIDI hit is the QMidi library

https://github.com/waddlesplash/QMidi<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_waddlesplash_QMidi&d=DgMFaQ&c=ZQs-KZ8oxEw0p81sqgiaRA&r=lEMX2_AJ6Iksc5dFd0-VOg&m=YSU301onuzBBah5qy89GRTNL5PhzKOjMx-HOYC8_sMQ&s=9_fN2otNCHI9eFtt4LSxl9b9nKrTFPjcRM6Gzi-8bsg&e=>

which apparently only handles output of MIDI events, and it sounds like you are primarily interested in input of MIDI events to ChimeraX.

  We welcome any recommendations on what PyQt library could handle incoming MIDI events.  My quick web search turned up nothing.

Tom

On Nov 18, 2016, at 9:47 AM, Dougherty, Matthew T wrote:

Many of the USB devices I have been looking at for control surfaces are midi-centric, primarily coming out of the music industry.

For simple devices, not going the midi-route is usually straight forward, although can get complex supporting cross-platform.

For complex devices such as DS1, midi appears to be the best method for dial boxes.  There is also economical advantages and an ongoing evolution of such devices.
https://www.amazon.com/Livid-Instruments-Portable-Digital-Mixer/dp/B00M4OEWMW/ref=sr_1_1?ie=UTF8&qid=1479490715&sr=8-1&keywords=livid+ds1<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.amazon.com_Livid-2DInstruments-2DPortable-2DDigital-2DMixer_dp_B00M4OEWMW_ref-3Dsr-5F1-5F1-3Fie-3DUTF8-26qid-3D1479490715-26sr-3D8-2D1-26keywords-3Dlivid-2Bds1&d=DgMFaQ&c=ZQs-KZ8oxEw0p81sqgiaRA&r=lEMX2_AJ6Iksc5dFd0-VOg&m=YSU301onuzBBah5qy89GRTNL5PhzKOjMx-HOYC8_sMQ&s=kwBeFxV6UE7XEm6Mrx9c5rzqHCfSaEjuTGoMCjd7VCI&e=>

 It also allows one to take advantage of manufacturer software in configuring baseline operational conditions (setting dial colors, ranges, toggling action of buttons).

We have talked about midi in the event loop before.  At the time it was not clear how/if this could work under chimeraX.

Any further ideas?

Matthew Dougherty
National Center for Macromolecular Imaging
Baylor College of Medicine
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