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authorMohammad Akhlaghi <mohammad@akhlaghi.org>2020-05-23 16:56:32 +0100
committerMohammad Akhlaghi <mohammad@akhlaghi.org>2020-05-23 16:56:32 +0100
commit39161aac768e3a6be3a7ebea7256350cda085582 (patch)
tree1a59b7e2b669fa05c9ea67a090a133c555dc2aca /paper.tex
parentb41a6468074b67d6155a4640d4058439fa447baf (diff)
Biography style reverted to CiSE PDF mode (different from webpage)
After a look at the PDFs of the linked papers of the previous commit and a few 2020 papers, we noticed that the biography format of the webpage and PDFs are different! So it is now back in its old way (which is how biographies are presented in the PDF). A few other minor edits were made in the text.
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@@ -66,7 +66,7 @@
%% METHOD
The criteria have been tested in several research publications and can be summarized as: completeness (no dependency beyond a POSIX-compatible operating system, no administrator privileges, no network connection and storage primarily in plain-text); modular design; linking analysis with narrative; temporal provenance; scalability; and free-and-open-source software.
%% RESULTS
- Through an implementation, called ``Maneage'' (managing+lineage), we find that storing the project in machine-actionable and human-readable plain-text, enables version-control, cheap archiving, automatic parsing to extract data provenance, and peer-review-able verification.
+ Through an implementation, called ``Maneage'', we find that storing the project in machine-actionable and human-readable plain-text, enables version-control, cheap archiving, automatic parsing to extract data provenance, and peer-review-able verification.
Furthermore, we find that these criteria are not limited to long-term reproducibility but also provide immediate, fast short-term reproducibility benefits.
%% CONCLUSION
We conclude that requiring longevity from solutions is realistic and discuss the benefits of these criteria for scientific progress.
@@ -249,7 +249,7 @@ When the used software are also free,
Given the limitations of existing tools with the proposed criteria, it is necessary to show a proof of concept.
The proof presented here has already been tested in previously published papers \cite{akhlaghi19, infante20} and was recently awarded a Research Data Alliance (RDA) adoption grant for implementing the recommendations of the joint RDA and World Data System (WDS) working group on Publishing Data Workflows\cite{austin17}, from the researcher perspective to ensure longevity.
-The proof of concept is called Maneage (MANaging + LinEAGE, ending is pronounced like ``Lineage'').
+The proof of concept is called Maneage, for \emph{Man}aging data Lin\emph{eage} (ending is pronounced like ``Lineage'').
It was developed along with the criteria, as a parallel research project in 5 years for publishing our reproducible workflows to supplement our research.
Its primordial form was implemented in \cite{akhlaghi15} and later evolved in \href{http://doi.org/10.5281/zenodo.1163746}{zenodo.1163746} and \href{http://doi.org/10.5281/zenodo.1164774}{zenodo.1164774}.
@@ -423,7 +423,7 @@ However, this is a long-term goal and requires major changes to academic value s
Other implementations of the criteria, or future improvements in Maneage, may solve some of the caveats above.
However, the proof of concept already shows many advantages to adopting the criteria.
For example, publication of projects with these criteria on a wide scale allows automatic workflow generation, optimized for desired characteristics of the results (for example via machine learning).
-Because Maneage is complete, algorithms and data selection methods can be similarly optimized.
+Because of the completeness criteria, algorithms and data selection can be similarly optimized.
Furthermore, through elements like the macros, natural language processing can also be included, automatically analyzing the connection between an analysis with the resulting narrative \emph{and} history of that analysis/narrative.
Parsers can be written over projects for meta-research and data provenance studies, for example to generate ``research objects''.
As another example, when a bug is found in one software package, all affected projects can be found and the scale of the effect can be measured.
@@ -492,25 +492,19 @@ The Pozna\'n Supercomputing and Networking Center (PSNC) computational grant 314
%% Biography
\begin{IEEEbiographynophoto}{Mohammad Akhlaghi}
- Instituto de Astrof\'isica de Canarias (IAC)
-
- Mohammad Akhlaghi is a postdoctoral researcher at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
+ is a postdoctoral researcher at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
His main scientific interest is in early galaxy evolution, but to extract information from the modern complex datasets, he has been involved in image processing and reproducible workflow management where he has founded GNU Astronomy Utilities (Gnuastro) and Maneage (introduced here).
He received his PhD in astronomy from Tohoku University, Sendai Japan, and before coming to Tenerife, held a CNRS postdoc position at the Centre de Recherche Astrophysique de Lyon (CRAL).
Contact him at mohammad@akhlaghi.org and find his website at \url{https://akhlaghi.org}.
\end{IEEEbiographynophoto}
\begin{IEEEbiographynophoto}{Ra\'ul Infante-Sainz}
- IAC
-
- Ra\'ul Infante-Sainz is a doctoral student at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
+ is a doctoral student at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
Contact him at infantesainz@gmail.com.
\end{IEEEbiographynophoto}
\begin{IEEEbiographynophoto}{Boudewijn F. Roukema}
- Nicolaus Copernicus University
-
- Boudewijn F. Roukema is a professor at the Institute of Astronomy in the Faculty of Physics, Astronomy and Informatics at Nicolaus Copernicus University in Toru\'n, Grudziadzka 5, Poland.
+ is a professor at the Institute of Astronomy in the Faculty of Physics, Astronomy and Informatics at Nicolaus Copernicus University in Toru\'n, Grudziadzka 5, Poland.
His research includes galaxy formation, large scale structure of the Universe, cosmic topology and inhomogeneous cosmology.
He is involved in experimental research aimed at improving standards in research reproducibility.
Roukema obtained his PhD in astronomy and astrophysics at the Australian National University.
@@ -518,16 +512,12 @@ The Pozna\'n Supercomputing and Networking Center (PSNC) computational grant 314
\end{IEEEbiographynophoto}
\begin{IEEEbiographynophoto}{David Valls-Gabaud}
- Observatoire de Paris
-
- David Valls-Gabaud is a professor at the Observatoire de Paris, France.
+ is a professor at the Observatoire de Paris, France.
Contact him at david.valls-gabaud@obspm.fr.
\end{IEEEbiographynophoto}
\begin{IEEEbiographynophoto}{Roberto Baena-Gall\'e}
- IAC
-
- Roberto Baena-Gall\'e is a postdoctoral researcher at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
+ is a postdoctoral researcher at the Instituto de Astrof\'isica de Canarias, Tenerife, Spain.
Before enrolling IAC, he worked at University of Barcelona, Reial Acad\`emia de Ci\`encias i Arts de Barcelona, l'Universit\'e Pierre et Marie Curie and ONERA-The French Aerospace Lab.
His research interests are image processing and resolution of inverse problems, with applications to AO corrected FOVs, satellite identification under atmospheric turbulence and retina images.
He is currently involved in projects related with PSF estimation of large astronomic surveys and Machine Learning.