Declaration of participation

[rougier]

This thread collects declaration of participation to the Ten Years Reproducibility Challenge. You can add your own declaration by adding the article your target with possibly a link to an open access version of the PDF.

Declared number of participants: 35
Number of targeted papers: 43
Oldest targeted paper: 28 years old (@MikeSilberbauer)

[rougier]

Paper number: 1
Reference: Rougier, N.P. and Vitay, J. 2006. Emergence of Attention within a Neural Population. Neural Networks 19, 5, 573–581. DOI:10.1016/j.neunet.2005.04.004

Article age: 13 years old
Open access version (optional): PDF
Confidence in success (optional): low (not sure to have the sources anymore)

[aleblois]

Paper number: 2
Reference: Leblois A, Boraud T, Meissner W, Bergman H, Hansel D (2006) Competition between feedback loops underlies normal and pathological dynamics in the basal-ganglia. J. Neurosci. 26: 3567-83. DOI:10.1523/JNEUROSCI.5050-05.2006

Article age: 13 years old
Open access version (optional): PDF
Confidence in success (optional): high ;)

[khinsen]

Paper number: 3
Reference: Hinsen, K (2008) Structural flexibility in proteins: impact of the crystal environment. Bioinformatics 24:521. DOI:10.1093/bioinformatics/btm625

Article age: 12 years (the publication date is December 2007)
Open access version: PDF
Confidence in success: high (but not without effort)

Comment: this is my first paper for which all source code has been published

See this repository for progress on the reproduction attempt.

[khinsen]

Paper number: 4
Reference: Cichocki B, Hinsen K (1995) Stokes drag on conglomerates of spheres. Phys. Fluids 7:286. DOI:10.1063/1.868626

Article age: 24 years
Open access version: none (but see this summary prepared for the reproduction attempt)
Confidence in success: low (not sure I can find all the code)

See this repository for progress on the reproduction attempt.

[apdavison]

Paper number: 5
Reference: Davison A.P., Feng J. and Brown D. (2003) Dendrodendritic inhibition and simulated odor responses in a detailed olfactory bulb network model. Journal of Neurophysiology 90: 1921–1935 doi:10.1152/jn.00623.2002

Article age: 16 years
Open access version: the PDF can be freely downloaded from the publisher site, but is not under an open licence.
Confidence in success: high

[sje30]

Paper number: 6
Reference: Stephen Eglen, Alistair Bray & Jim Stone (1997) Unsupervised discovery of invariances, Network: Computation in Neural Systems volume 8, issue 4 DOI:10.1088/0954-898X_8_4_006
Article age: 22 years
Open access version: /
Confidence in success: low

Paper number: 7
Reference: Stephen J. Eglen and James C.T. Wong (2008) Spatial constraints underlying the retinal mosaics of two types of horizontal cells in cat and macaque, Visual Neuroscience, volume 25, issue 2 DOI:10.1017/S0952523808080176
Article age: 11 years
Open access version: PDF
Confidence in success: high

[cboettig]

I'd be interested in attempting this for the following paper: https://doi.org/10.1016/j.tpb.2009.10.003 if it is acceptable -- I guess it depends on the definition of 'published date'. The final accepted version of the paper was published online by the journal on 18 October 2009 (as you can see at that DOI under "show more"), but the print version did not appear until February 2010, a month after your cutoff. As some journals only have online versions to begin with, it seems reasonable to use the date of online publication rather than print publication, but please let me know either way. Details here:

Paper number: 8
Reference: Carl Boettiger, Jonathan Dushoff, Joshua S Weitz (2010). Fluctuation domains in adaptive evolution, Theoretical Population Biology 77 (1) 6-13. doi:10.1016/j.tpb.2009.10.003
Article age: 10 years
Open access version: arxiv:1004.4233
Confidence in success: moderate

[rdicosmo]

Paper Number: 9
Reference: Marco Danelutto, Roberto Di Cosmo, Xavier Leroy, and Susanna Pelagatti. Parallel functional programming with skeletons: the OCamlP3L experiment. In Proceedings ACM workshop on ML and its applications. Cornell University, 1998.
Article age: 20 years
Open Access version: http://xavierleroy.org/publi/ocamlp3l-mlws.pdf
Confidence in success: moderate
Comment: Incredible but true, I cannot seem to find an online version of this paper, except for the locally archived copy on Xavier's publications webpage and mine. Making a note here to deposit it on an open access repository when I start working on this :-)

[jrfaller]

Paper Number: 10
Reference: Jean-Rémy Falleri, Marianne Huchard, Mathieu Lafourcade, Clémentine Nebut:
Metamodel Matching for Automatic Model Transformation Generation. MoDELS 2008: 326-340
Article age: 12 years
Open Access version: https://hal-lirmm.ccsd.cnrs.fr/lirmm-00322879/
Confidence in success: moderate
Comment: This one of my first papers, so the sentimental value is high :). However, the code has been through a lot since it was hosted on Google Code, so the first challenge will be to retrieve the latest version. Additionnally, I had much less knowledge on software construction tools at the time, therefore this should be fun!

[delsuc]

Paper Number: 11
Reference: Dominique Tramesel, Vincent Catherinot, Marc-André Delsuc
Modeling of NMR processing, toward efficient unattended processing of NMR experiments
doi: 10.1016/j.jmr.2007.05.023
Article age: 12 years
Open Access version: http://www.delsuc.net/pdf/2007-Journal%20of%20Magnetic%20Resonance-Tramesel.pdf
Confidence in success: low
Comment: This program is piling up some FORTRAN77 code linked to Java and controlled by python scripts using jython (a flavor of python running inside the Java machine) ! Additionally, all FORTRAN codes are purely 32bits.
If this is too difficult, I intend falling back on the pure FORTRAN code, published in 1996 (so one year short to Konrad one) which could actually be easier.
Reference: Jean-Luc Pons, Thérèse E. Malliavin, Marc A. Delsuc Gifa V. 4: A complete package for NMR data set processing.
doi: 10.1007/BF00228146

April 2020: I finally decided to go for the alternative goal - and successfully reproduced the 1996 paper - this was Much simpler. You find it here.

[broukema]

Paper Number: 12
Reference: Roukema, B. F.; Buliński, Z.; Gaudin, N. E.
Poincaré dodecahedral space parameter estimates
Astronomy and Astrophysics, 2008, 492, 657-673
ADS: https://ui.adsabs.harvard.edu/abs/2008A%26A...492..657R
DOI: 10.1051/0004-6361:200810685
Article age: 11 years
Open Access version: https://arXiv.org/abs/0807.4260 (green open access)
Confidence in success: high
Dates of archiving: Web.archive.org has archived at least the two URLs which are listed in the Comments: field of ArXiv:0807.4260:

• https://web.archive.org/web/20110810143023/http://cosmo.torun.pl/GPLdownload/dodec/
• https://web.archive.org/web/20110810142735/http://cosmo.torun.pl/GPLdownload/MCMC/
  These URLs have been publicly accessible since around the date of publishing the article, and the software is free-licensed.