Mailman 3 September 2017 - yt-dev

request for code review
by Nathan Goldbaum Sept. 25, 2017

Sept. 25, 2017

Hi all, I think these two pull requests from Corentin are either good to go or practically there, they just needs a couple more eyes on them. https://github.com/yt-project/yt/pull/1548 https://github.com/yt-project/yt/pull/1555 We don't have a lot of Ramses experience among the people who commonly review code so I understand why there's some reluctance. That said, I don't think you need Ramses experience to understand what's going on. If you have a chance to look these over, I'd appreciate it. -Nathan

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API changes to in_units
by John ZuHone Sept. 19, 2017

Sept. 19, 2017

Hi folks, I’m suggesting some minor and backwards-compatible API changes related to the in_units method of YTArray and YTQuantity: https://github.com/yt-project/yt/pull/1563 <https://github.com/yt-project/yt/pull/1563> Please have a look and make comments. Best, John Z

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dependency addition for yt
by Britton Smith Sept. 19, 2017

Sept. 19, 2017

Hi all, I am working on a new yt frontend for the Enzo-P code. Enzo-P outputs runtime parameters in a libconfig format and I am looking for a reliable package to read this. yt has a libconfig-style reader in yt/utilities/pyparselibconfig, but it does not seem to parse Enzo-P parameter files correctly. I have tried a few other python libconfig parsers that do parse them correctly, so I believe the problem is with the yt module. For what it's worth, the only use of yt's libconfig parser is in the Enzo frontend for a certain style of Enzo-3.0 data, but it doesn't look like this is being tested, nor do we host any sample data of this format. I have a PR open for the Enzo-P frontend here <https://github.com/yt-project/yt/pull/1490> that makes use of an external package, called libconf <https://pypi.python.org/pypi/libconf>. I've implemented this as an on-demand import, so it will only be required if you're actually loading Enzo-P data. The pros for libconf are that it's pure python, pip installable, has a permissive MIT license, and works in both python 2 and 3. The con is of course that this adds a new dependency. Personally, I would prefer not having to maintain our own module to do this, but I'm open to other opinions. What are people's thoughts on adding this dependency? Britton

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Survey invitation for Code Review study on yt project
by Nasir Eisty Sept. 16, 2017

Sept. 16, 2017

Dear yt developers, As part of an NSF software award, we are planning to perform a study on Software Engineering Practices for Computational Science and Engineering (CSE) software development. The discipline of software engineering focuses on developing techniques and tools to assist developers in efficiently building high-quality and trustworthy software. Code review is one of the important techniques of software engineering defined as a systematic examination of computer source code which intends to find and remove vulnerabilities in the initial development phase and improve software quality. Our plan is to understand the practices, impacts and barriers of code review technique in CSE software development. For this study, we are considering the Einstein Toolkit, yt-project and Brown Dog projects as use cases. You are invited to participate in this research project because you are a developer of the yt project. Your participation in this research study is voluntary. You may choose not to participate. If you decide to participate in this research survey, you may withdraw at any time. If you decide not to participate in this study or if you withdraw from participating at any time, you will not be penalized. The procedure involves filling an online survey that will take approximately 20 minutes. Your responses will be kept confidential, and we do not collect identifying information such as your name, email address, or IP address. The survey questions will be about how you review code, how your code is being reviewed, what are the impacts and expectations, if there are any challenges or barriers, and potential areas of improvement. We will do our best to keep your information confidential. All data is stored in an electronic format. To help protect your confidentiality, the survey will not contain information that will personally identify you. The results of this study will be used for scholarly purposes only, and may be shared with related project personnel. If you have any questions about the research study, please contact Gabrielle Allen (gdallen(a)illinois.edu), Roland Haas (rhaas(a)illinois.edu), Nasir Eisty (neisty(a)crimson.ua.edu), Jeffrey Carver (carver(a)cs.ua.edu), Daniel S. Katz (dskatz(a)illinois.edu). This research has been reviewed according to University of Illinois at Urbana-Champaign IRB procedures for research involving human subjects. If you have any questions about your rights as a participant in this study or any concerns or complaints, please contact the University of Illinois Office for the Protection of Research Subjects at 217-333-2670 <(217)%20333-2670> or via email at irb(a)illinois.edu. *Please click on the Survey Link <https://docs.google.com/forms/d/e/1FAIpQLSfoXRVwLNwaIcx1-XqXEdSB_OSHgWn9qnt…> to begin the survey. Please complete the survey by the end of Sunday, September 17, 2017.* Thank you very much! Best Regards, Nasir - - - - - - - - - - - - - - - - - - - - - - - - - Nasir Uddin Eisty *PhD Student* *Department of Computer Science* *University of Alabama* *Tuscaloosa, Alabama, USA*

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Nominate Corentin Cadiou as a yt project member
by Nathan Goldbaum Sept. 13, 2017

Sept. 13, 2017

Hi all, I hope everyone's semester if starting off well. I'd like to nominate Corentin Cadiou (@cphyc on github) as a yt project member. Corentin has been regularly contributing for almost a year now, sending in high-quality contributions, including bugfixes and improvements for RAMSES and other octree AMR data. I'd like to recognize his contributions up until now and empower further contributions by nominating him as a yt project member. According to YTEP-1776 ( http://ytep.readthedocs.io/en/latest/YTEPs/YTEP-1776.html), we need positive votes from three additional yt project members to accept the nomination. Once that happens I will update the website and the YTEP and add Corentin to the yt org on github. Corentin, once that happens please feel free to add a short bio on the website under the project members page. -Nathan

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Re: [yt-dev] yt Debian (and Ubuntu) package
by B.W. Keller Sept. 13, 2017

Sept. 13, 2017

Hi Ole & All, Sorry I missed your earlier email, I moved to Germany this summer and getting things settled had me very busy for the last few months. I've been building the debian package on my workstation at my former university, I'm going to move it to a VPS I've set up and try automating the build process a bit more so that it won't rely on my free time quite as much. I'm going to try and fix these bugs this week, I'll update you Friday about what I'm able to get done. Thanks for the patience! Ben Keller On Tue, Sep 12, 2017 at 8:24 AM, Ole Streicher <olebole(a)debian.org> wrote: > Dear yt developers, > > as you may know, yt has an official Debian package, and is delivered > with our current stable version: > > https://packages.debian.org/stretch/python3-yt > > The current version, however, needs some love: we don't have the newest > version; the current one (3.3.3) fails to build with the current Cython > version, and it does not build anymore on many of our platforms. It has > now three release critical bugs: > > https://bugs.debian.org/854195 > https://bugs.debian.org/867197 > https://bugs.debian.org/873511 > > I already tried to contact Ben for this, but did not get a response. The > package seems to be popular, and it is used by a number of people, so it > would be great if we could bring it back into a good shape. > > Best regards > > Ole >

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