Changes to the ASCL

Improvements are coming to the ASCL; we don’t have a firm timeline yet but expect to have the majority of changes made well before the end of the year. The presentation below shows screenshots of the changes; we hope you like what you see.

The biggest changes are that code entries will move from the APOD discussion forum and will be housed in a new database. We have been running the new database in parallel with the existing ASCL and are getting closer to putting the new database into production. We are integrating our current technologies — this WordPress site for our general information and blog and the phpbb for announcements and discussion for individual codes — into our new infrastructure as well.

Current URLs for code entries will continue to work after implementation of the new system. We will likely be making changes in several phases, and will announce them before and after here and on our social media sites.

Please let us know what you think; thanks!

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Creating and evaluating data management plans

I’m delighted to offer the following guest post by Jonathan Petters, Data Management Consultant, Johns Hopkins Data Management Services, and thank him very much for it!

Funding agencies have long encouraged and expected that data and code used in the course of funded research be made available to those in the research discipline.In a recent discussion on preservation and sharing of research data, a few participants expressed their concern (paraphrased here) that “My research community doesn’t know how to create a quality data management plan” and “We don’t know how to evaluate data management plans.” The astronomy community explicitly requested a little guidance. We in Johns Hopkins University Data Management Services have developed a few resources, described below, of use in both developing and evaluating data management plans within all research disciplines, including astronomy.

Funding agencies have long encouraged and expected that data and code used in the course of funded research be made available to those in the research discipline. NSF is an important funder of astronomical research that has such expectations (and the agency I will focus on here). A few years ago NSF began requiring data management plans as part of research proposal, in part to aid in the dissemination and sharing of research data and code. Following a February 2013 Office of Science and Technology Policy memo other US funding agencies are expected to follow suit with similar data management plan requirements, including the Department of Energy’s Office of Science.

What does NSF say about writing and evaluating quality data management plans? A good overview of NSF data policies relevant for the AST community can be found in these slides from Daniel Katz, NSF). In general the National Science Foundation (NSF) states that data management will be defined by “the communities of interest.” The NSF AST-specific policy further states “MPS Divisions will rely heavily on the merit review process in this initial phase to determine those types of plan that best serve each community and update the information accordingly.” Neither statement is especially prescriptive and can leave researchers unclear as to what they should do.

Creating a plan
While effective research data management certainly has community- and discipline-specific attributes, there ARE aspects of effective data management that are generalizable across research disciplines. It is around these general aspects that we in Johns Hopkins University Data Management Services (JHUDMS) devised our Data Management Planning Questionnaire. We work through this questionnaire with researchers at Johns Hopkins to help them create effective data management plans.

The Questionnaire is designed to comprehensively hit upon the important aspects of effective research data management (e.g. data inputs/outputs in the research, ethical/legal compliance, standards and formats used, intended sharing and preservation, PI restrictions on the use of the data).  By answering the applicable questions in the document, removing the questions/front matter and connecting the answers in each section into paragraphs, a researcher would be well on their way to a quality, well thought-out data management plan.

Two relevant side-notes:
1.)   For the Questionnaire we consider code and software tools as one ‘kind’ of research data; thus analysis or simulation codes used in the course of your proposed research should be included as a Data Product. While research code and research data generated or processed by code are clearly NOT the same, there are many similarities in managing the two. In both cases effective management should include consideration of documentation, licensing, formats, associated metadata, and upon what platform(s) the data or code could be shared.

2.)   Astronomy, as in other disciplines, conducts a substantial amount of research through large collaborations (e.g. surrounding HST or SDSS data). In these cases it is typical for investments in research data infrastructure to be made, and data policies/practices to be defined for those working with the data. Citing those policies and practices in a data management plan would be appropriate.

Screenshot of Reviewer Guide and Worksheet for Data Management Plans

Screenshot of Reviewer Guide and Worksheet for Data Management Plans

Evaluating a plan
To help researchers evaluate data management plans for their quality, my colleagues developed the Reviewer Guide and Worksheet for Data Management Plans (dotx). This Guide and Worksheet is a complement to our Questionnaire; it is a handy checklist by which a grant reviewer can determine whether a researcher thoroughly considered the important aspects of research data management.

For those who researchers saying to themselves, “The Questionnaire and Reviewer Guide are nice, but PLEASE just tell me what to do!!!”, I found two tweets from the code sharing session at the latest (223rd) AAS meeting in January to be quite relevant (h/t August Muench and Lucianne Walkowicz):

Who enforces software/data sharing in astronomy? YOU DO! WE DO! PEER REVIEW DOES! not snf/nasa #aas223 #astroCodeShare It's UP TO YOU to include good data management plan as part of panel reviews. The community must enforce importance. #aas223 #astroCodeShare

I wholeheartedly agree with both tweets. It is up to the research community members to police and enforce the data management and sharing practices they would like to see in their community. That’s how peer review works! So the next time you review astronomical research proposals, look over the data management plans carefully and bring up relevant thoughts and concerns to the review panel.

Summing up
I hope the Data Management Planning Questionnaire and Reviewer Guide and Worksheet for Data Management Plans help you and other researchers in the astronomy community more fully develop expectations for data management and sharing practices. It’s likely your institution also has research data management personnel (like the JHUDMS at Hopkins) who are more than happy to help!

Code citation news, info, and commentary

Mozilla Science Lab, GitHub and Figshare team up to fix the citation of code in academia
The Mozilla Science Lab, GitHub and Figshare – a repository where academics can upload, share and cite their research materials – is starting to tackle the problem. The trio have developed a system so researchers can easily sync their GitHub releases with a Figshare account. It creates a Digital Object Identifier (DOI) automatically, which can then be referenced and checked by other people.

Discussion of the above article on YCombinator
…it always make me cringe when privately held companies want to define an “open standard” for scientific citations that (surprise!) relies completely on their proprietary infrastructure. I still remember the case of Mendeley, which promised to build an open repository for research documents, and which is now a subsidiary of Elsevier, an organization that does not really embrace “open science”, to put it mildly.

Tool developed at CERN makes software citation easier
Researchers working at CERN have developed a tool that allows source code from the popular software development site GitHub to be preserved and cited through the CERN-hosted online repository Zenodo….
Now, people working on software in GitHub will be able to ensure that their code is not only preserved through Zenodo, but is also provided with a unique digital object identifier (DOI), just like an academic paper.

Webcite
WebCite is an on-demand archiving system for webreferences (cited webpages and websites, or other kinds of Internet-accessible digital objects), which can be used by authors, editors, and publishers of scholarly papers and books, to ensure that cited webmaterial will remain available to readers in the future.

DOIs unambiguously and persistently identify published, trustworthy, citable online scholarly literature. Right?
So DOIs unambiguously and persistently identify published, trustworthy, citable online scholarly literature. Right? Wrong.
The examples above are useful because they help elucidate some misconceptions about the DOI itself, the nature of the DOI registration agencies and, in particular issues being raised by new RAs and new DOI allocation models.

February 2014 code additions

Thirty-five codes were added to the ASCL in February:

Aladin Lite: Lightweight sky atlas for browsers
ANAigm: Analytic model for attenuation by the intergalactic medium
ARTIST: Adaptable Radiative Transfer Innovations for Submillimeter Telescopes
astroplotlib: Astronomical library of plots
athena: Tree code for second-order correlation functions

BAOlab: Baryon Acoustic Oscillations software
BF_dist: Busy Function fitting
CASSIS: Interactive spectrum analyzer
Commander 2: Bayesian CMB component separation and analysis
CPL: Common Pipeline Library

Darth Fader: Galaxy catalog cleaning method for redshift estimation
DexM: Semi-numerical simulations for very large scales
FAMA: Fast Automatic MOOG Analysis
GalSim: Modular galaxy image simulation toolkit
Glue: Linked data visualizations across multiple files

gyrfalcON: N-body code
HALOFIT: Nonlinear distribution of cosmological mass and galaxies
HydraLens: Gravitational lens model generator
KROME: Chemistry package for astrophysical simulations
libsharp: Library for spherical harmonic transforms

MGHalofit: Modified Gravity extension of Halofit
Munipack: General astronomical image processing software
P2SAD: Particle Phase Space Average Density
PyGFit: Python Galaxy Fitter
PyVO: Python access to the Virtual Observatory

PyWiFeS: Wide Field Spectrograph data reduction pipeline
QUICKCV: Cosmic variance calculator
QuickReduce: Data reduction pipeline for the WIYN One Degree Imager
SPLAT-VO: Spectral Analysis Tool for the Virtual Observatory
SPLAT: Spectral Analysis Tool

TARDIS: Temperature And Radiative Diffusion In Supernovae
UVMULTIFIT: Fitting astronomical radio interferometric data
Vissage: ALMA VO Desktop Viewer
wssa_utils: WSSA 12 micron dust map utilities
XNS: Axisymmetric equilibrium configuration of neutron stars

Codes gone bad and how to save them

The ASCL has 779 codes in it now, some of which date back to the 1990s. With the speed at which both the web and code authors (often grad students or post docs) move, links to some code sites are bound to go bad over time. We use a checker regularly to test links to ensure we’re not pointing to dead links; when we do find a broken link (defined as one we haven’t been able to reach for at least 2 weeks), we look for a new one and, if that doesn’t work, email the code author(s) to ask where the code has moved.

We can’t always find a good link, and code authors sometimes don’t reply to our emails. Currently, eight codes — 1% of our entries — have bad links. Of these, for half of them we either cannot find the code author or the code author has not replied to numerous emails.

What else can we do?

I assume that some code authors forget their codes. Having moved on perhaps to another institution and other work, they do not have time nor incentive to create a new web home for a code they wrote some years ago. That’s understandable, but then the code, a unique solution to a problem, an artifact of astrophysics research, a method used in research, is lost.

We’d like to save the codes (Save the Codes! I may have to put that on glow-in-the-dark pencils); here are a few ideas for authors who no longer want to maintain a site for their codes:

  1. Send an archive file of the code to the ASCL. We can house it, as we do for CHIWEI.
  2. Post the code in an online repostitory such as GitHub, SourceForge, Code.Google, or Bitbucket if you would like the code to be open source and are open to others continuing its development, or on a site such as Figshare or Zenodo to simply make it available.
  3. Create a Research Compendium for your paper, data, and code on Research Compendia, or a companion website for your research on RunMyCode and load the code and data for your research there.
  4. Ask your institutional library to house it; many institutions have repositories for storing the digital artifacts of academia and research.

I don’t know about option 4, but options 1-3 should take 15 minutes or less. Surely a code is worth that little bit of extra time to make it available to others even if you don’t want to be bothered with it anymore.

Please save your code; don’t let it go bad!

Where the codes are

There are currently 768 codes registered in the ASCL; the percentages of codes hosted on different popular sites are:

GitHub: 4.17%
SourceForge: 3.78%
Code.Google: 1.96%
Bitbucket: 0.52%

That means 11% of codes indexed by the ASCL are hosted on a public site conducive to social programming. That’s higher than the 7% from two years ago (by coincidence, almost exactly two years ago) and not unexpected, given the growth of GitHub. Fewer than 1% of ASCL codes were in GitHub two years ago (only 3 at that time — wow!); now there are 32 hosted on GitHub. For comparison, there were 14 codes on SourceForge two years ago, so while that number has doubled, the growth in use of GitHub is obviously much greater.

Though stored on sites conducive to collaboration, most of these codes are not big collaborations; the majority of codes in the ASCL in these repositories have 4 or fewer authors.

I expect the percentage of codes on such sites to grow as more people use these tools for versioning; I think those who use such tools may also be more open to sharing their codes and advertising them (via links in papers if nothing else), making them easier to find/register in the ASCL, too.

Licensing your code

“Each developer holds copyright in his or her code the moment it is written, and because all the world’s major copyright systems—including the US after 1976—do not require notices, publishing code without a copyright notice doesn’t change this.”1

In the recent code sharing session at the AAS 223 meeting, both Alberto Accomazzi and David Hogg mentioned the difficulty of dealing with code that did not carry any license, copyright notice, nor sometimes even author information with it. Such code is difficult to share for transparency, reuse, or expansion. Letting people know whether and how they can use your code and/or share it is a kindness not just to them, but to the community and even yourself, whether you want to retain copyright on the code, choose one of the copyleft licenses, or make your code public domain.

Just beginning to think about licensing and trying to wrap your head around it? TechSoup offers a good introduction on licensing in Making Sense of Software Licensing, and I’ve previously mentioned A Quick Guide to Software Licensing for the Scientist-Programmer from PLoS in our list of general articles that may be of interest to astronomical software users.

If you already know you want an open source license for your open source software (OSS) but don’t know which to choose, the Choose a license site describes different popular open source licenses; it is a good resource for getting an overview of each of them. The Open Source Initiative also offers information on licenses and has a FAQ that is useful for clarifying such terms as copyleft, public domain, open source, and free software in addition to others one runs across when considering licensing.

Interested in retaining copyright within a collaborative free software project? This white paper from the Software Freedom Law Center identifies best practices for doing so. And if you’re thinking about changing a code’s license, you may want to read Bruce Berriman’s informative post, with plenty of resources in it, on his Astronomy Computing Today blog.

What resources have you found helpful for licensing? I am very interested in knowing, and hope you will please share them; thank you!

1 http://softwarefreedom.org/resources/2012/ManagingCopyrightInformation.html

Saving software

“…some of the greatest artifacts of the [astronomy] community’s creative problem-solving are at risk of being lost.”

I believe this; a good thing, since this is what Peter Teuben and I wrote in We didn’t see this coming: Our unexpected roles as software archivists and what we learned at Preserving.exe, one of three participant reports in “Preserving.exe: Toward a National Strategy for Software Preservation.”

This report arose from a summit held at the Library of Congress on May 20-21, 2013 by the National Digital Information Infrastructure and Preservation Program. Our piece discusses the summit itself, some of what we learned there, and its impact on the way we think about the ASCL and our work. Among the ideas raised at the summit was that of software as a cultural artifact. We wrote:

The Summit broadened our view and appreciation for software as a cultural artifact and as a method of capturing creativity in problem-solving.

Now we see the loss of computational methods that result in research as a loss of part of astronomy’s cultural heritage. This isn’t happening just for astronomy, of course; the Summit made clear that it is happening for everything. With so much rendered digitally, whether born that way or migrated to a digital medium, without preserving the digital artifacts and the software (and sometimes hardware) to lift these artifacts from their digital storage, we risk losing our art, our music, our games, our prose, our data, and our histories, of daily life and activities, of solutions to scientific problems, of popular pastimes and play experiences, and even knowledge of our computer worries and angst.

More on what we learned at the summit is available in the full report, which includes excellent pieces by participants Henry Lowood, Stanford University (The Lures of Software Preservation) and Matthew Kirschenbaum, University of Maryland (An Executable Past: The Case for a National Software Registry), an introduction by Trevor Owens, Library of Congress, and interviews of Doug White of the National Institute of Standards and Technology’s National Software Reference Library and Michael Mansfield from the Smithsonian American Art Museum.

PreservingEXE: Toward a National Strategy for Software Preservation

New papers to read

It’s not just astrophysics; other sciences are also grappling with issues surrounding software release, transparency of research, and collaboratively sharing codes.

The challenge of software licensing came up in the AAS 223 Special Session on code sharing; ASCL advisor Bruce Berriman followed up on this issue with a post on Astronomy Computing Today, and I’ve recently run across A Quick Guide to Software Licensing for the Scientist-Programmer, which also offers some guidance on this important issue.

Tweets from and about the code sharing session at AAS223

The code sharing crowd took over the AAS Twitter feed, it seems, during the Special Session on code sharing at AAS 223. Bottom up is the best way to read these, as the most recent tweet is on the top, and please note they aren’t strictly in order of occurrence and I likely missed some (there were so many!). I’m happy to add those I missed if someone tells me about them. Thanks to all those who tweeted throughout the session!

  1. ASCL@asclnet 10 Jan
    @
    shaka_lulu
    I keep a list of articles of possible interest to #astroCodeShare folks here: http://asterisk.apod.com/viewtopic.php?f=35&t=21544 …. #aas223
  2. Nuria Lorente@NoTruerAlien 7 Jan
    @
    augustmuench
    @bruceberriman Absolutely, but NOT releasing code also comes at a price, which is often forgotten. #aas223 #astroCodeShare
  3. Zach Pace@zpacefromspace 7 Jan
    Just got finished with an awesome breakout session at #aas223 on code sharing. The moral: your code may be crap, but release it anyway!
  4. Nuria Lorente@NoTruerAlien 7 Jan
    Morin et al: Informative paper on Sw licensing for Scientist-Programmer. MT @augustmuench: http://bit.ly/QlZKDP #astroCodeShare #aas223
  5. Chrissy Madison@cmmadiso 7 Jan
    See. It happens! RT @bathompso: Pulling a @cmmadiso: my phone has 1% battery after the #astroCodeShare session. #AAS223
  6. Ben Thompson@bathompso 7 Jan
    Pulling a @cmmadiso: my phone has 1% battery after the #astroCodeShare session. #AAS223
  7. Adrian Price-Whelan@a_p_w 7 Jan
    RE: writing quick/dirty code to get papers out. “Weeks of programming can save you hours of planning.” #aas223
  8. Lucianne Walkowicz@shaka_lulu 7 Jan
    Hanisch: there should also be a prize for software, esp since Webber prize is for hardware only #aas223 #astroCodeShare
  9. August Muench@augustmuench 7 Jan
    .@AlexaVillaume note: that paper is for software. licensing of *data/papers* is distinct but VERY important thing. #aas223 #astroCodeShare
  10. Lucianne Walkowicz@shaka_lulu 7 Jan
    Licensing: BSD or MIT and forget about it- but we should discuss it more as community – @davidwhogg #astroCodeShare #aas223 cc @jonmccann
  11. Lucianne Walkowicz@shaka_lulu 7 Jan
    @
    jonmccann
    crap I had to answer an email and missed license discussion. Maybe check #astroCodeShare tag if someone else got it
  12. Christopher Hanley@chanley 7 Jan
    @
    eblur27
    Projects should include a citations file in repo right next to LICENCE.txt and README. Make it easier to be cidted #astroCodeShare
  13. August Muench@augustmuench 7 Jan
    so @aaccomazzi brings us back to licensing: unlicenced code is the WORST. @davidwhogg echos this point #aas223 #astroCodeShare
  14. Lia Corrales@eblur27 7 Jan
    Hey #astroCodeShare, I still want to know how I should cite software I get through github. Could help with fluid contributor lists #aas223
  15. Lucianne Walkowicz@shaka_lulu 7 Jan
    Something to be gleaned from size of room v attendance v perceived necessary size of room & how code is valued. #aas223 #astroCodeShare
  16. Ben Cook@bacook17 7 Jan
    Reference in #aas223 code sharing session. http://wssspe.researchcomputing.org.uk
  17. Kelle Cruz@kellecruz 7 Jan
    #
    AAS223
    lots of different ways to share code…but I really want to spend time and energy making it expected & common practice.
  18. Lucianne Walkowicz@shaka_lulu 7 Jan
    Comment in back: u make good science by making good investments- invest in quality code by encouraging code sharing #aas223 #astroCodeShare
  19. Kelle Cruz@kellecruz 7 Jan
    #
    aas223
    I care less about how we data & code share. tech will work itself out. I want to make it a *requirement* for funds and publications.
  20. Alexa Villaume@AlexaVillaume 7 Jan
    A mortifying story of a misplaced 2 in a program causing 8 years of research going down the drain. Share your code. It’ll be ok. #aas223
  21. Meredith Rawls@merrdiff 7 Jan
    .@kellecruz If it’s easy to share code & get credit, we’ll do it. Reminds me of this: http://theoatmeal.com/comics/game_of_thrones … #aas223 #astroCodeShare
  22. Lucianne Walkowicz@shaka_lulu 7 Jan
    There are more ppl in this room than were in the Kepler session I attended yesterday. #aas223 #astroCodeShare
  23. August Muench@augustmuench 7 Jan
    @
    jradavenport
    225: Panel: MMMMMM Q: FMMFFFMM A: all M except 1 comment by F audience #astroCodeShare
  24. August Muench@augustmuench 7 Jan
    So @eteq is gonna drop the mic: papers have fixed author lists. software authorship if fluid and grows. Et tu, ADS? #astroCodeShare #aas223
  25. Lucianne Walkowicz@shaka_lulu 7 Jan
    Reply: if it goes on arXiv you can never update contributor list, so subsequent contributors don’t get credit #aas223 #astroCodeShare
  26. Lucianne Walkowicz@shaka_lulu 7 Jan
    Prsa: would be great if announcement of code went up on arXiv (I think they often do as release papers, e.g. emcee) #aas223 #astroCodeShare
  27. August Muench@augustmuench 7 Jan
    interesting point: Montage built under contract to NASA; astropy built by cats, hosted on a cat based website #astroCodeShare #aas223
  28. Meredith Rawls@merrdiff 7 Jan
    Andrej Prsa implores everyone in #astroCodeShare session to post code on astro-ph every time you submit a paper. #aas223
  29. Meredith Rawls@merrdiff 7 Jan
    My advisor has said not to “waste time” writing generalized code; contradicting this is troubling. Mixed messages. #aas223
    #astroCodeShare
  30. Lucianne Walkowicz@shaka_lulu 7 Jan
    Cost to sharing: making code useable by anyone req more time than just making it work for you then publishing w it #aas223 #astroCodeShare
  31. Meredith Rawls@merrdiff 7 Jan
    Recurring theme of how do I maximize research productivity and make my code useable for others? Not an easy Q. #AAS223 #astroCodeShare
  32. Lucianne Walkowicz@shaka_lulu 7 Jan
    That is, proprietary data sometimes equates to leverage- there is prob some analogy in code community- @davidwhogg #aas223 #astroCodeShare
  33. Lucianne Walkowicz@shaka_lulu 7 Jan
    panelists doubt ppl are being hired for a specific code as opposed to skill, but must be analogy w proprietary data #aas223 #astroCodeShare
  34. Lucianne Walkowicz@shaka_lulu 7 Jan
    Q: how do we reward ppl in ways that don’t req keeping code proprietary? As in, ppl get hired bc they have the code #aas223 #astroCodeShare
  35. Lia Corrales@eblur27 7 Jan
    Sad I’m missing #astroCodeShare, but reports of a packed room and massive twitter coverage are letting me stay comfy in COS session #aas223
  36. Lucianne Walkowicz@shaka_lulu 7 Jan
    Besides, every little thing you think no one else needs- *someone* will prob find it useful #aas223 #astroCodeShare
  37. Lucianne Walkowicz@shaka_lulu 7 Jan
    A: do what you need, if no one else needs it then that’s fine, you haven’t made anyone’s life worse – @davidwhogg #aas223 #astroCodeShare
  38. Lucianne Walkowicz@shaka_lulu 7 Jan
    Q: what’s the balance bt needing to make code work for yourself vs making it useful for everyone always? #aas223 #astroCodeShare
  39. Lucianne Walkowicz@shaka_lulu 7 Jan
    Comment in back: u make good science by making good investments- invest in quality code by encouraging code sharing #aas223 #astroCodeShare
  40. Lucianne Walkowicz@shaka_lulu 7 Jan
    Katz: not really, unlikely beyond a few years’ horizon at a time #aas223 #astroCodeShare
  41. Lucianne Walkowicz@shaka_lulu 7 Jan
    No long term stewardship of code like there is for results (i.e. pubs)- does NSF have plans for that? – @davidwhogg #aas223 #astroCodeShare
  42. Ben Thompson@bathompso 7 Jan
    . @kellecruz starting off the #astroCodeShare question session strong. Why no AAS reps here? #AAS223
  43. Lucianne Walkowicz@shaka_lulu 7 Jan
    Do you use other people’s codes? Do you modify them or use them as is? #astroCodeShare #aas223
  44. Lucianne Walkowicz@shaka_lulu 7 Jan
    Do you share code? If not, why not? #astroCodeShare #aas223
  45. Lucianne Walkowicz@shaka_lulu 7 Jan
    Benefits: perceived priority on work, visibility & good will, citations, bug-catching, and moral high ground – DWH #astroCodeShare #aas223
  46. Alexa Villaume@AlexaVillaume 7 Jan
    Releasing code establishes priority and good will. Benefit from bug catching. Also, you get to be smug. #aas223
  47. Laura Watkins@laurawatkins_ 7 Jan
    @
    davidwhogg
    : if you’re not embarrassed by the code you released, you released it too late. #aas223
  48. Ian Paul Freeley@ianpaulfreeley 7 Jan
    If your not embarrassed by your code/website, you launched too late–Hogg #aas223
  49. Ben Thompson@bathompso 7 Jan
    If you’re not embarrassed by your code, you’re releasing it too late #AAS223 #astroCodeShare
  50. Meredith Rawls@merrdiff 7 Jan
    .@davidwhogg debunks cons to code sharing. Only real cost is email & support requests. He knows of NO example of being scooped. #aas223
  51. August Muench@augustmuench 7 Jan
    hogg: “if you’re not embarrassed by the code/website you put out there then you put it out there too late.” so good. #astroCodeShare #aas223
  52. Lucianne Walkowicz@shaka_lulu 7 Jan
    Cost: embarrassment! You know your code is crap, but if yr not embarrassed you released too late. –@davidwhogg #aas223 #astroCodeShare
  53. Lucianne Walkowicz@shaka_lulu 7 Jan
    Costs: getting scooped? @davidwhogg knows of no cases of scooping caused by *release of code* #astroCodeShare #aas223
  54. Lucianne Walkowicz@shaka_lulu 7 Jan
    All papers, grant writing, etc – not just code – are developed out in the open since 2005. – @davidwhogg #astroCodeShare #aas223
  55. Matthew Turk@powersoffour 7 Jan
    @
    augustmuench
    Not all good or new software is developed using github. Platforms should be transcended by applications. #astroCodeShare
  56. Lucianne Walkowicz@shaka_lulu 7 Jan
    And boom, @davidwhogg right on time. Also, who mic’d him? #astroCodeShare #aas223
  57. Laura Watkins@laurawatkins_ 7 Jan
    +1 MT @augustmuench “and this fact terrifies me because we have no idea collectively what sharing should look like. #astroCodeShare #aas223
  58. August Muench@augustmuench 7 Jan
    and this fact terrifies me because education — we have no idea collectively what sharing should look like. #astroCodeShare #aas223
  59. August Muench@augustmuench 7 Jan
    Who enforces software/data sharing in astronomy? YOU DO! WE DO! PEER REVIEW DOES! not nsf/nasa. #aas223 #astroCodeShare
  60. Lucianne Walkowicz@shaka_lulu 7 Jan
    Its UP TO YOU to include good data management plan as part of panel reviews. The community must enforce importance. #aas223 #astroCodeShare
  61. Lucianne Walkowicz@shaka_lulu 7 Jan
    Data management plans in NSF proposals are required to detail how results/data/software will be shared. – Katz #astroCodeShare #aas223
  62. Lucianne Walkowicz@shaka_lulu 7 Jan
    NSF policy for sharing research results: supposed to share not only the data and the results but the software #astroCodeShare #aas223
  63. Lucianne Walkowicz@shaka_lulu 7 Jan
    NSF does include “products” in addtn to pubs in bio sketches, but could be better abt following up on code release #AAS223 #astroCodeShare
  64. Lucianne Walkowicz@shaka_lulu 7 Jan
    Do we have policies that mandate code release in conjunction w publication or receipt of fed funds? #aas223 #astroCodeShare
  65. August Muench@augustmuench 7 Jan
    Software that enables all this new software: Github, Travis, Sphinx, Jenkins. #aas223 #astroCodeShare
  66. August Muench@augustmuench 7 Jan
    Agreed. RT @kellecruz: .@augustmuench we need to make data/code sharing requirements part of AAS journal policy. those two things. #aas223
  67. Ben Thompson@bathompso 7 Jan
    Testing code is an important part of code sharing. #aas224 session? #AAS223
  68. Kelle Cruz@kellecruz 7 Jan
    .@augustmuench we need to make data/code sharing requirements part of AAS journal policy. those two things. #aas223
  69. Lucianne Walkowicz@shaka_lulu 7 Jan
    If you build it, they will code – Tollerud #aas223 #astroCodeShare
  70. Lucianne Walkowicz@shaka_lulu 7 Jan
    Need infrastructure, a few software ppl to do housekeeping, let scientists do whatev & set expectations – Tollerud #astroCodeShare #aas223
  71. Lucianne Walkowicz@shaka_lulu 7 Jan
    Most ppl who have contributed code to AstroPY have never met each other – all via @github – Tollerud #astroCodeShare #aas223
  72. Ben Thompson@bathompso 7 Jan
    Almost 60 people (who have not met) have all worked together to build @astropy #astroCodeShare #AAS223
  73. Lucianne Walkowicz@shaka_lulu 7 Jan
    AstroPY: a python library for and by astronomers, developed by self-herding astronomers since 2011 – Tollerud #astroCodeShare #aas223
  74. August Muench@augustmuench 7 Jan
    I hoping that we see some cool diffs between the @astropy and montage *support* networks in the open discussion in #astroCodeShare #aas223
  75. August Muench@augustmuench 7 Jan
    . @merrdiff “research objects” is I think the new age terminology. #aas223 #astroCodeShare
  76. David Morrison@drmorr0 7 Jan
    @
    merrdiff
    Best advice I have: learn to use Git (or SVN, if you must), and use it for every single piece of code you write. #astroCodeShare
  77. Lucianne Walkowicz@shaka_lulu 7 Jan
    I have used this exact cat herding graphic in Erik Tollerud’s talk in an LSST talk hehe #aas223 #astroCodeShare
  78. August Muench@augustmuench 7 Jan
    the @astropy project — cat herding software development from @eteq at #astroCodeShare #aas223
  79. Ian Paul Freeley@ianpaulfreeley 7 Jan
    Damn it–tweets from code sharing session sounded cool, but I got here late and now crowd out the door. #aas223
  80. Alex Parker@Alex_Parker 7 Jan
    I’m nodding so vigorously at the #astroCodeShare tweets that I might need to ice my neck later.
  81. Dr Chris Tibbs@chris_tibbs 7 Jan
    Love the fact that my timeline is currently full of great tweets about code sharing and EPO #aas223
  82. Kelle Cruz@kellecruz 7 Jan
    #
    aas223
    ok, maybe 20% women in code sharing session but still disproportionately tweeting. #interesting
  83. Alexa Villaume@AlexaVillaume 7 Jan
    “I wrote my first fortran code when Apollo 12 was on the moon.” #aas223
  84. August Muench@augustmuench 7 Jan
    Decision to code Cloudy in C++ was partly motivated to use industry grade lang & give students real world job ops! #astroCodeShare #aas223
  85. Meredith Rawls@merrdiff 7 Jan
    Learning about the CLOUDY code, but speaker has no visuals 🙁 Jokes that the code can be opaque; “C++: write once, read never.” #aas223
  86. Lucianne Walkowicz@shaka_lulu 7 Jan
    Complaining astros aren’t comp scientists is like saying they shldn’t learn math bc they aren’t mathematicians #astroCodeShare #aas223
  87. Timothy Pickering@te_pickering 7 Jan
    #
    preach
    ! RT @shaka_lulu: I’ll paraphrase @mjuric here: code is to modern astronomy what calculus once was. #aas223 #astroCodeShare
  88. Lucianne Walkowicz@shaka_lulu 7 Jan
    I’ll paraphrase @mjuric here: code is to modern astronomy what calculus once was. #aas223 #astroCodeShare
  89. Kelle Cruz@kellecruz 7 Jan
    #
    aas223
    could someone in the back of the code sharing session do a quick attendance & gender count? I’m in the front row…
  90. Jessica Lu@jlu_astro 7 Jan
    @
    kellecruz
    Tell me if you figure it out!
  91. Kelle Cruz@kellecruz 7 Jan
    #
    aas223
    code sharing room is packed! I’m curious what brought them all here…
  92. Lucianne Walkowicz@shaka_lulu 7 Jan
    Q: how much do you think we fail to educate our young researchers to write good code? #astroCodeShare #aas223
  93. Ben Thompson@bathompso 7 Jan
    Q on why students are not educated on how to write good code (or code at all!) #AAS223
    We have all failed here.
  94. August Muench@augustmuench 7 Jan
    The code base under question is Montage http://bit.ly/1aELvEz , dev’d & now volunteerly supported by IPAC scientists #aas223 #astroCodeShare
  95. August Muench@augustmuench 7 Jan
    “Releasing your code comes with a price” — @bruceberriman Hmm, let’s see if this pivots to the positive+solutions! #aas223 #astroCodeShare
  96. Lucianne Walkowicz@shaka_lulu 7 Jan
    Lastly, resist the pundit-technician divide. – Weiner #aas223 #astroCodeShare
  97. August Muench@augustmuench 7 Jan
    I completely agree with @cloud149: a lot of our concerns about sharing code are “pseudo” or hypothetical problems. #aas223 #astroCodeShare
  98. Michelle Collins@michelle_lmc 7 Jan
    We are failing to teach students how to write GOOD code in astronomy. Need to do better. Some programs in place, but not standard #aas223
  99. Laura Watkins@laurawatkins_ 7 Jan
    “Do we do enough to teach our researchers how to write good code?” No. Fundamental skills but so many are left to learn alone. #aas223
  100. Kelle Cruz@kellecruz 7 Jan
    #
    aas223
    really interesting that nearly 100% of the women in the code sharing session are tweeting…all 4 of us. #exaggerating
  101. Laura Watkins@laurawatkins_ 7 Jan
    Standing room only at the code sharing session. Apparently this is more popular than anticipated (this can only be a good thing)! #aas223
  102. Meredith Rawls@merrdiff 7 Jan
    Astrophysics code sharing session 225 at #aas223. Let’s stop re-inventing the wheel. Our hardware is built to last; why not software?
  103. Michelle Collins@michelle_lmc 7 Jan
    Oh, there are no women on the code sharing panel. Are we not sharing code? I’m currently not, but i’m here to learn how to #aas223
  104. Ben Thompson@bathompso 7 Jan
    Excited for the Astronomy Code Sharing session. Wondering what to do with all my research programs. #AAS223
  105. Erik Tollerud@eteq 7 Jan
    #
    aas223
    , Tues@2pm: talking about lesson’s from @astropy on how code can be shared, along side @owlice @davidwhogg @bruceberriman @cloud149
  106. Benjamin Weiner@cloud149 7 Jan
    My talk “Occupy Hard Drives” for code session Tues 2 pm #aas223 is here: http://bit.ly/1acClmg @davidwhogg @bruceberriman @owlice @eteq
  107. ADASS@astroADASS 7 Jan
    Follow discussion on astronomy code sharing at the #aas223 meeting using #astroCodeShare hashtag.
  108. Benjamin Weiner@cloud149 7 Jan
    Tues 2pm #aas223 I aim to provoke on astro code sharing and why we don’t respect software with @davidwhogg @bruceberriman @owlice @eteq
  109. Astropy@astropy 6 Jan
    At the #aas223? Don’t miss Tuesday’s 14:00-15:30 session on code sharing – including a talk by @eteq about @astropy!

  110. David W. Hogg@davidwhogg 6 Jan
    Tues at 2 see @owlice Hanisch Teuben @cloud149 @bruceberriman Ferland Katz @eteq and me get all crazy about #code sharing at #aas223 in NH5