From 48e61df320e7571e527049cd3eef5cf96b8cb491 Mon Sep 17 00:00:00 2001 From: Mohammad Akhlaghi Date: Mon, 23 Mar 2020 03:16:06 +0000 Subject: Analysis and configuration file sections complete With this commit a description of these two important parts have been added to the project, along with several figures showing various parts of the files that are discussed. I also done some other restructuring of the figures and files to make things fit better into the the description of the paper. --- reproduce/analysis/config/INPUTS.conf | 15 +++++++++++++++ reproduce/analysis/config/INPUTS.mk | 15 --------------- reproduce/analysis/config/menke-demo-year.conf | 3 +++ reproduce/analysis/config/pdf-build.conf | 21 +++++++++++++++++++++ reproduce/analysis/config/pdf-build.mk | 21 --------------------- reproduce/analysis/config/verify-outputs.conf | 3 +++ reproduce/analysis/config/verify-outputs.mk | 3 --- 7 files changed, 42 insertions(+), 39 deletions(-) create mode 100644 reproduce/analysis/config/INPUTS.conf delete mode 100644 reproduce/analysis/config/INPUTS.mk create mode 100644 reproduce/analysis/config/menke-demo-year.conf create mode 100644 reproduce/analysis/config/pdf-build.conf delete mode 100644 reproduce/analysis/config/pdf-build.mk create mode 100644 reproduce/analysis/config/verify-outputs.conf delete mode 100644 reproduce/analysis/config/verify-outputs.mk (limited to 'reproduce/analysis/config') diff --git a/reproduce/analysis/config/INPUTS.conf b/reproduce/analysis/config/INPUTS.conf new file mode 100644 index 0000000..b1cf546 --- /dev/null +++ b/reproduce/analysis/config/INPUTS.conf @@ -0,0 +1,15 @@ +# Input files necessary for this project. +# +# This file is read by the configure script and running Makefiles. +# +# Copyright (C) 2018-2020 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. + +MK20DATA = menke20.xlsx +MK20MD5 = 8e4eee64791f351fec58680126d558a0 +MK20SIZE = 1.9MB +MK20URL = https://www.biorxiv.org/content/biorxiv/early/2020/01/18/2020.01.15.908111/DC1/embed/media-1.xlsx diff --git a/reproduce/analysis/config/INPUTS.mk b/reproduce/analysis/config/INPUTS.mk deleted file mode 100644 index b1cf546..0000000 --- a/reproduce/analysis/config/INPUTS.mk +++ /dev/null @@ -1,15 +0,0 @@ -# Input files necessary for this project. -# -# This file is read by the configure script and running Makefiles. -# -# Copyright (C) 2018-2020 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. - -MK20DATA = menke20.xlsx -MK20MD5 = 8e4eee64791f351fec58680126d558a0 -MK20SIZE = 1.9MB -MK20URL = https://www.biorxiv.org/content/biorxiv/early/2020/01/18/2020.01.15.908111/DC1/embed/media-1.xlsx diff --git a/reproduce/analysis/config/menke-demo-year.conf b/reproduce/analysis/config/menke-demo-year.conf new file mode 100644 index 0000000..429b220 --- /dev/null +++ b/reproduce/analysis/config/menke-demo-year.conf @@ -0,0 +1,3 @@ +# This is the demonstration year showing the number of papers studied +# before 1997. +menke-demo-year = 1996 diff --git a/reproduce/analysis/config/pdf-build.conf b/reproduce/analysis/config/pdf-build.conf new file mode 100644 index 0000000..e2d59cc --- /dev/null +++ b/reproduce/analysis/config/pdf-build.conf @@ -0,0 +1,21 @@ +# Make the final PDF? +# ------------------- +# +# During the project's early phases, it is usually not necessary to build +# the PDF file (which makes a lot of output lines on the command-line and +# can make it hard to find the commands and possible errors (and their +# outputs). Also, in some cases, only the produced results may be of +# interest and not the final PDF, so LaTeX (and its necessary packages) may +# not be installed. +# +# If this variable is given any string, a PDF will be made with +# LaTeX. Otherwise, a notice will just printed that for now, no PDF will be +# created. +# +# Copyright (C) 2018-2020 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. +pdf-build-final = yes diff --git a/reproduce/analysis/config/pdf-build.mk b/reproduce/analysis/config/pdf-build.mk deleted file mode 100644 index e2d59cc..0000000 --- a/reproduce/analysis/config/pdf-build.mk +++ /dev/null @@ -1,21 +0,0 @@ -# Make the final PDF? -# ------------------- -# -# During the project's early phases, it is usually not necessary to build -# the PDF file (which makes a lot of output lines on the command-line and -# can make it hard to find the commands and possible errors (and their -# outputs). Also, in some cases, only the produced results may be of -# interest and not the final PDF, so LaTeX (and its necessary packages) may -# not be installed. -# -# If this variable is given any string, a PDF will be made with -# LaTeX. Otherwise, a notice will just printed that for now, no PDF will be -# created. -# -# Copyright (C) 2018-2020 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. -pdf-build-final = yes diff --git a/reproduce/analysis/config/verify-outputs.conf b/reproduce/analysis/config/verify-outputs.conf new file mode 100644 index 0000000..e580e04 --- /dev/null +++ b/reproduce/analysis/config/verify-outputs.conf @@ -0,0 +1,3 @@ +# To disable verification of output datasets set this variable to yes + +verify-outputs = diff --git a/reproduce/analysis/config/verify-outputs.mk b/reproduce/analysis/config/verify-outputs.mk deleted file mode 100644 index e580e04..0000000 --- a/reproduce/analysis/config/verify-outputs.mk +++ /dev/null @@ -1,3 +0,0 @@ -# To disable verification of output datasets set this variable to yes - -verify-outputs = -- cgit v1.2.1