From e682332669b804bdecaf3eddd2521bcfe0eb7241 Mon Sep 17 00:00:00 2001
From: Boud Roukema <boud@cosmo.torun.pl>
Date: Sun, 19 Apr 2020 15:58:51 +0200
Subject: Clickable URLs for the 19 earlier reproducibility solutions

In this commit, the URLs for the 19 "earlier solutions" at the
beginning of "3 Principles" are recovered from
tex/src/paper-long.tex and put behind the package names
as clickable words.

To reduce the chance that these are interpreted as references,
"Project1 (yyy1), Project2 (yyy1)" is changed to "yyy1: Project1,
Project2". We cannot add full references because of the 8000-word
space constraint.

With a minor word improvement, this commit overall reduces the word
count very slightly, by 9, according to

pdftotext paper.pdf |wc paper.txt

before and after the commit.
---
 paper.tex | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'paper.tex')

diff --git a/paper.tex b/paper.tex
index e7ca088..13c0aad 100644
--- a/paper.tex
+++ b/paper.tex
@@ -201,7 +201,7 @@ As a consequence, before starting with the technical details it is important to
 
 The core principle of Maneage is simple: science is defined by its method, not its result.
 \citet{buckheit1995} summarize this nicely by noting that modern scientific papers are merely advertisements of a scholarship, the actual scholarship is the coding behind the analysis that ultimately generated the plots/results.
-Various solutions have been proposed for this since the early 1990s, for example RED (1992), Apache Taverna (2003), GenePattern (2004), Galaxy (2010), WINGS (2010), Image Processing On Line journal (IPOL, 2011), Active papers (2011), SHARE (2011), Verifiable Computational Result (2011), SOLE (2012), Sciunit (2015), Binder (2017), Popper (2017), WholeTale (2019), and many more.
+Many solutions have been proposed for this since the early 1990s, including: 1992: \href{https://sep.stanford.edu/doku.php?id=sep:research:reproducible}{RED}; 2003: \href{https://taverna.incubator.apache.org}{Apache Taverna}; 2004: \href{https://www.genepattern.org}{GenePattern}; 2010: \href{https://galaxyproject.org}{Galaxy}, \href{https://wings-workflows.org}{WINGS}; 2011: \href{https://www.ipol.im}{Image Processing On Line journal} (IPOL), \href{https://www.activepapers.org}{Active papers}, \href{https://is.ieis.tue.nl/staff/pvgorp/share}{SHARE}, \href{https://vcr.stanford.edu}{Verifiable Computational Result}; 2012: \href{https://osf.io/ns2m3}{SOLE}; 2015: \href{https://sciunit.run}{Sciunit}; 2017: \href{https://mybinder.org}{Binder}, \href{https://falsifiable.us}{Popper}; 2019: \href{https://wholetale.org}{WholeTale}.
 To highlight the uniqueness of Maneage in this plethora of tools, a more elaborate list of principles are required:
 
 \begin{enumerate}[label={\bf P\arabic*}]
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