From c0a512e0631a024f18bec847125a9a03e6aa23a1 Mon Sep 17 00:00:00 2001 From: Mohammad Akhlaghi Date: Fri, 22 May 2020 23:35:21 +0100 Subject: Corrected copyright notices to fit GPL suggested format In time, some of the copyright license description had been mistakenly shortened to two paragraphs instead of the original three that is recommended in the GPL. With this commit, they are corrected to be exactly in the same three paragraph format suggested by GPL. The following files also didn't have a copyright notice, so one was added for them: reproduce/software/make/README.md reproduce/software/bibtex/healpix.tex reproduce/analysis/config/delete-me-num.conf reproduce/analysis/config/verify-outputs.conf --- reproduce/software/bibtex/healpix.tex | 7 +++++++ 1 file changed, 7 insertions(+) (limited to 'reproduce/software/bibtex') diff --git a/reproduce/software/bibtex/healpix.tex b/reproduce/software/bibtex/healpix.tex index b9089be..bae1acb 100644 --- a/reproduce/software/bibtex/healpix.tex +++ b/reproduce/software/bibtex/healpix.tex @@ -1,3 +1,10 @@ +%% Copyright (C) 2019-2020 Mohammad Akhlaghi +%% +%% Copying and distribution of this file, with or without modification, +%% are permitted in any medium without royalty provided the copyright +%% notice and this notice are preserved. This file is offered as-is, +%% without any warranty. + @ARTICLE{healpix, author = {{G{\'o}rski}, K.~M. and {Hivon}, E. and {Banday}, A.~J. and {Wand elt}, B.~D. and {Hansen}, F.~K. and {Reinecke}, M. and {Bartelmann}, M.}, -- cgit v1.2.1 From 4ff12fa2d3b52452290feac89ea3e0dc54fc2de1 Mon Sep 17 00:00:00 2001 From: Mohammad Akhlaghi Date: Fri, 22 May 2020 23:44:08 +0100 Subject: Software citation: removed abstract entry from BibTeX info Until now, two of the software BibTeX sources (Matplolib and Sympy) had an "abstract" entry that was long, not similar to the rest, and not relevant in this context, so they are removed with this commit. --- reproduce/software/bibtex/matplotlib.tex | 4 ---- reproduce/software/bibtex/sympy.tex | 3 --- 2 files changed, 7 deletions(-) (limited to 'reproduce/software/bibtex') diff --git a/reproduce/software/bibtex/matplotlib.tex b/reproduce/software/bibtex/matplotlib.tex index 9ad7f1a..a76a41f 100644 --- a/reproduce/software/bibtex/matplotlib.tex +++ b/reproduce/software/bibtex/matplotlib.tex @@ -12,10 +12,6 @@ Volume = {9}, Number = {3}, Pages = {90}, - abstract = {Matplotlib is a 2D graphics package used for Python - for application development, interactive scripting, and - publication-quality image generation across user - interfaces and operating systems.}, publisher = {IEEE COMPUTER SOC}, doi = {10.1109/MCSE.2007.55}, year = 2007 diff --git a/reproduce/software/bibtex/sympy.tex b/reproduce/software/bibtex/sympy.tex index e1a1e37..fd4da56 100644 --- a/reproduce/software/bibtex/sympy.tex +++ b/reproduce/software/bibtex/sympy.tex @@ -11,9 +11,6 @@ year = 2017, month = jan, keywords = {Python, Computer algebra system, Symbolics}, - abstract = { - SymPy is an open source computer algebra system written in pure Python. It is built with a focus on extensibility and ease of use, through both interactive and programmatic applications. These characteristics have led SymPy to become a popular symbolic library for the scientific Python ecosystem. This paper presents the architecture of SymPy, a description of its features, and a discussion of select submodules. The supplementary material provide additional examples and further outline details of the architecture and features of SymPy. - }, volume = 3, pages = {103}, journal = {PeerJ CompSci}, -- cgit v1.2.1 From 0043ba8d9032048d62b36f42f143e88ad330af27 Mon Sep 17 00:00:00 2001 From: Mohammad Akhlaghi Date: Mon, 25 May 2020 21:00:10 +0100 Subject: Unified reference to GNU/Linux and free software One of the main reasons to building Maneage is to properly acknowledge/attribute the authors of software in research. So we have adopted a standard of never referring to the GNU-based operating systems running the Linux kernel simply as "Linux", we avoid terms like "Open Sourse" and use Free Software instead (in the same spirit). With this commit, a few instances of the cases above have been corrected, they had slipped through our fingers when we initially imported them into the project. In the special case of the "Journal for Open Source Software", we simply replaced it with its abbreviation (JOSS). This was done because in effect we were generally using journal name abbreviations in almost all the citations already. To avoid any inconsistancies, the names of the three other journals that weren't abbreviated are also abbreviated. --- reproduce/software/bibtex/corner.tex | 2 +- reproduce/software/bibtex/galsim.tex | 2 +- reproduce/software/bibtex/missfits.tex | 4 ++-- reproduce/software/bibtex/mpi4py.tex | 2 +- 4 files changed, 5 insertions(+), 5 deletions(-) (limited to 'reproduce/software/bibtex') diff --git a/reproduce/software/bibtex/corner.tex b/reproduce/software/bibtex/corner.tex index b55c157..c4359d1 100644 --- a/reproduce/software/bibtex/corner.tex +++ b/reproduce/software/bibtex/corner.tex @@ -8,7 +8,7 @@ @ARTICLE{corner, author = {{Foreman-Mackey}, Daniel}, title = "{corner.py: Scatterplot matrices in Python}", - journal = {The Journal of Open Source Software}, + journal = {JOSS}, year = "2016", month = "Jun", volume = {1}, diff --git a/reproduce/software/bibtex/galsim.tex b/reproduce/software/bibtex/galsim.tex index 0efa048..b9d0b08 100644 --- a/reproduce/software/bibtex/galsim.tex +++ b/reproduce/software/bibtex/galsim.tex @@ -12,7 +12,7 @@ {Dietrich}, J.~P. and {Armstrong}, R. and {Melchior}, P. and {Gill}, M.~S.~S.}, title = "{GALSIM: The modular galaxy image simulation toolkit}", - journal = {Astronomy and Computing}, + journal = {Astron.Comput.}, keywords = {Methods: data analysis, Techniques: image processing, Gravitational lensing, Cosmology: observations, Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - Cosmology and Nongalactic Astrophysics, 85-04}, year = "2015", month = "Apr", diff --git a/reproduce/software/bibtex/missfits.tex b/reproduce/software/bibtex/missfits.tex index 85a1645..bdb2879 100644 --- a/reproduce/software/bibtex/missfits.tex +++ b/reproduce/software/bibtex/missfits.tex @@ -8,11 +8,11 @@ @ARTICLE{missfits, author = {{Marmo}, C. and {Bertin}, E.}, title = "{MissFITS and WeightWatcher: Two Optimised Tools for Managing FITS Data.}", - journal = {Astronomical Data Analysis Software and Systems XVII}, + journal = {ASPC}, year = 2008, volume = {394}, series = {Astronomical Society of the Pacific Conference Series}, pages = {619}, adsurl = {https://ui.adsabs.harvard.edu/abs/2008ASPC..394..619M}, adsnote = {Provided by the SAO/NASA Astrophysics Data System} -} \ No newline at end of file +} diff --git a/reproduce/software/bibtex/mpi4py.tex b/reproduce/software/bibtex/mpi4py.tex index dde77f0..a72d529 100644 --- a/reproduce/software/bibtex/mpi4py.tex +++ b/reproduce/software/bibtex/mpi4py.tex @@ -9,7 +9,7 @@ author = {{Dalcin}, L.~D. and {Paz}, R.~R. and {Kler}, P.~A. and {Cosimo}, A. }, title = "{Parallel distributed computing using Python}", - journal = {Advances in Water Resources}, + journal = {AdvWatRes}, year = 2011, month = sep, volume = 34, -- cgit v1.2.1