First set of customizations done

The unnecessary parts were removed and the project now runs.

7 files changed, 6 insertions, 138 deletions

diff --git a/reproduce/analysis/config/delete-me-num.mk b/reproduce/analysis/config/delete-me-num.mk
deleted file mode 100644
index 17f608c..0000000
--- a/reproduce/analysis/config/delete-me-num.mk
+++ /dev/null
@@ -1,2 +0,0 @@
-# Number of samples to create
-delete-me-num = 50
diff --git a/reproduce/analysis/config/verify-outputs.mk b/reproduce/analysis/config/verify-outputs.mk
index 5d8eff1..e580e04 100644
--- a/reproduce/analysis/config/verify-outputs.mk
+++ b/reproduce/analysis/config/verify-outputs.mk
@@ -1,3 +1,3 @@
 # To disable verification of output datasets set this variable to yes
 
-verify-outputs = yes
+verify-outputs =
diff --git a/reproduce/analysis/make/delete-me.mk b/reproduce/analysis/make/delete-me.mk
deleted file mode 100644
index 3ba4909..0000000
--- a/reproduce/analysis/make/delete-me.mk
+++ /dev/null
@@ -1,129 +0,0 @@
-# Dummy Makefile to create a random dataset for plotting.
-#
-# Copyright (C) 2018-2020 Mohammad Akhlaghi <mohammad@akhlaghi.org>
-#
-# This Makefile is free software: you can redistribute it and/or modify it
-# under the terms of the GNU General Public License as published by the
-# Free Software Foundation, either version 3 of the License, or (at your
-# option) any later version.
-#
-# This Makefile is distributed in the hope that it will be useful, but
-# WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General
-# Public License for more details.
-#
-# A copy of the GNU General Public License is available at
-# <http://www.gnu.org/licenses/>.
-
-
-
-
-
-# Dummy dataset
-# -------------
-#
-# We will use AWK to generate a table showing X and X^2 and draw its plot.
-delete-numdir = $(texdir)/delete-me-num
-delete-num    = $(delete-numdir)/data.txt
-$(delete-numdir): | $(texdir); mkdir $@
-$(delete-num): $(pconfdir)/delete-me-num.mk | $(delete-numdir)
-
-        # When the plotted values are re-made, it is necessary to also
-        # delete the TiKZ externalized files so the plot is also re-made.
-	rm -f $(tikzdir)/delete-me.pdf
-
-        # Generate the table of random values.
-	awk 'BEGIN {for(i=1;i<=$(delete-me-num);i+=0.5) print i, i*i; }' > $@
-
-
-
-
-
-# WFPC2 image PDF
-# -----------------
-#
-# For an example image, we'll make a PDF copy of the WFPC II image to
-# display in the paper.
-delete-demodir = $(texdir)/delete-me-demo
-$(delete-demodir): | $(texdir); mkdir $@
-delete-pdf = $(delete-demodir)/wfpc2.pdf
-$(delete-pdf): $(delete-demodir)/%.pdf: $(indir)/%.fits | $(delete-demodir)
-
-        # When the plotted values are re-made, it is necessary to also
-        # delete the TiKZ externalized files so the plot is also re-made.
-	rm -f $(tikzdir)/delete-me-wfpc2.pdf
-
-        # Convert the dataset to a PDF.
-	astconvertt --colormap=gray --fluxhigh=4 $< -h0 -o$@
-
-
-
-
-
-# Histogram of WFPC2 image
-# ------------------------
-#
-# For an example plot, we'll show the pixel value histogram also.
-delete-histogram = $(delete-demodir)/wfpc2-hist.txt
-$(delete-histogram): $(delete-demodir)/%-hist.txt: $(indir)/%.fits \
-                     | $(delete-demodir)
-
-        # When the plotted values are re-made, it is necessary to also
-        # delete the TiKZ externalized files so the plot is also re-made.
-	rm -f $(tikzdir)/delete-me-wfpc2.pdf
-
-        # Generate the pixel value distribution
-	aststatistics --lessthan=5 $< -h0 --histogram -o$@
-
-
-
-
-
-# Basic statistics
-# ----------------
-#
-# This is just as a demonstration on how to get analysic configuration
-# parameters from variables defined in `reproduce/analysis/config/'.
-delete-stats = $(delete-demodir)/wfpc2-stats.txt
-$(delete-stats): $(delete-demodir)/%-stats.txt: $(indir)/%.fits \
-                 | $(delete-demodir)
-	aststatistics $< -h0 --mean --median > $@
-
-
-
-
-
-# TeX macros
-# ----------
-#
-# This is how we write the necessary parameters in the final PDF.
-#
-# NOTE: In LaTeX you cannot use any non-alphabetic character in a variable
-# name.
-$(mtexdir)/delete-me.tex: $(delete-num) $(delete-pdf) $(delete-histogram) \
-                          $(delete-stats)
-
-        # Write the number of random values used.
-	echo "\newcommand{\deletemenum}{$(delete-me-num)}" > $@
-
-        # Note that since Make variables start with a `$(', if you want to
-        # use `$' within the shell (not Make), you have to quote any
-        # occurance of `$' with another `$'. That is why there are `$$' in
-        # the AWK command below.
-        #
-        # Here, we are first using AWK to find the minimum and maximum
-        # values, then using it again to read each separately to use in the
-        # macro definition.
-	mm=$$(awk 'BEGIN{min=99999; max=-min}
-	           !/^#/{if($$2>max) max=$$2; if($$2<min) min=$$2;}
-	           END{print min, max}' $(delete-num));
-	v=$$(echo "$$mm" | awk '{printf "%.3f", $$1}');
-	echo "\newcommand{\deletememin}{$$v}"             >> $@
-	v=$$(echo "$$mm" | awk '{printf "%.3f", $$2}');
-	echo "\newcommand{\deletememax}{$$v}"             >> $@
-
-        # Write the statistics of the WFPC2 image as a macro.
-	mean=$$(awk     '{printf("%.2f", $$1)}' $(delete-stats))
-	echo "\newcommand{\deletemewfpctwomean}{$$mean}"          >> $@
-	median=$$(awk   '{printf("%.2f", $$2)}' $(delete-stats))
-	echo "\newcommand{\deletemewfpctwomedian}{$$median}"      >> $@
diff --git a/reproduce/analysis/make/top-make.mk b/reproduce/analysis/make/top-make.mk
index 0292d3c..acbbafa 100644
--- a/reproduce/analysis/make/top-make.mk
+++ b/reproduce/analysis/make/top-make.mk
@@ -112,7 +112,6 @@ endif
 # wild-card like the configuration Makefiles).
 makesrc = initialize \
           download \
-          delete-me \
           verify \
           paper
 
diff --git a/reproduce/analysis/make/verify.mk b/reproduce/analysis/make/verify.mk
index 1173f2c..a04bce4 100644
--- a/reproduce/analysis/make/verify.mk
+++ b/reproduce/analysis/make/verify.mk
@@ -114,8 +114,7 @@ $(mtexdir)/verify.tex: $(foreach s, $(verify-dep), $(mtexdir)/$(s).tex)
           # Verify TeX macros (the values that go into the PDF text).
 	  for m in $(verify-check); do
 	    file=$(mtexdir)/$$m.tex
-	    if   [ $$m == delete-me ]; then s=711e2f7fa1f16ecbeeb3df6bcb4ec705
-	    elif [ $$m == download  ]; then s=6749e17ce606d57d30cebdbc1a5d23ad
+	    if [ $$m == download  ]; then s=XXXXX
 	    else echo; echo "'$$m' not recognized."; exit 1
 	    fi
 	    $(call verify-txt-no-comments-leading-space, $$file, $$s)
diff --git a/reproduce/software/config/installation/TARGETS.mk b/reproduce/software/config/installation/TARGETS.mk
index 164d606..2ffdbfe 100644
--- a/reproduce/software/config/installation/TARGETS.mk
+++ b/reproduce/software/config/installation/TARGETS.mk
@@ -36,7 +36,7 @@
 
 
 # Programs and libraries.
-top-level-programs  = gnuastro
+top-level-programs  =
 
 # Python libraries/modules.
-top-level-python    = astropy
+top-level-python    =
diff --git a/reproduce/software/config/installation/texlive.mk b/reproduce/software/config/installation/texlive.mk
index 5681795..c53e170 100644
--- a/reproduce/software/config/installation/texlive.mk
+++ b/reproduce/software/config/installation/texlive.mk
@@ -20,4 +20,5 @@ texlive-packages = tex fancyhdr ec newtx fontaxes xkeyval etoolbox xcolor \
                    setspace caption footmisc datetime fmtcount titlesec \
                    preprint ulem biblatex biber logreq pgf pgfplots fp \
                    courier tex-gyre txfonts times csquotes kastrup \
-                   trimspaces pdftexcmds pdfescape letltxmacro bitset
+                   trimspaces pdftexcmds pdfescape letltxmacro bitset \
+                   mweights