Gnuastro's memory mapping is now a local variable

As described in the commens above `MINMAPSIZE' of `LOCAL.mk.in', the amount
of memory to map to HDD/SSD or keep in RAM is a local issue and not
relevant to the pipeline's results. So it is now defined in a
`gnuastro-local.conf' file.

To keep the Makefiles clean, this file is created by the `./configure'
script. To do this cleanly, the `./configure' script was also almost fully
re-written with better functionality now.

3 files changed, 28 insertions, 6 deletions

diff --git a/reproduce/config/gnuastro/gnuastro.conf b/reproduce/config/gnuastro/gnuastro.conf
index 49f9906..a2a44cf 100644
--- a/reproduce/config/gnuastro/gnuastro.conf
+++ b/reproduce/config/gnuastro/gnuastro.conf
@@ -12,9 +12,10 @@
 # pipeline is taken from the default Gnuastro configuration from its
 # source (`bin/gnuastro.conf').
 
-# Reproduction pipeline
+# Reproduction pipeline (`./config' has to be before `lastconfig').
+ config           .gnuastro/gnuastro-local.conf
+ # onlyversion     X.X
  lastconfig       1
-# onlyversion     X.X
 
 # Input:
  hdu              1
@@ -30,7 +31,4 @@
  interponlyblank  0
 
 # Output:
- tableformat      fits-binary
-
-# Operating mode
- minmapsize       1000000000
\ No newline at end of file
+ tableformat      fits-binary
\ No newline at end of file
diff --git a/reproduce/config/pipeline/LOCAL.mk.in b/reproduce/config/pipeline/LOCAL.mk.in
index 896df2f..ac8e10e 100644
--- a/reproduce/config/pipeline/LOCAL.mk.in
+++ b/reproduce/config/pipeline/LOCAL.mk.in
@@ -48,3 +48,23 @@ SURVEY = reproduce/SURVEY
 # more easy: the contents of the build directory do not need to be backed
 # up since they can be reproduced and they can be large.
 BDIR = reproduce/BDIR
+
+
+
+
+
+# Memory mapping minimum size
+# ---------------------------
+#
+# Some programs (for example Gnuastro) can deal with cases where the local
+# system doesn't have enough memory (RAM) to keep large files there. For
+# example, they will create memory-mapped (`mmap' for short) files on the
+# HDD or SSD and read/write to them instead of RAM. This will ofcourse,
+# slow down the processing, but atleast the program won't crash.
+#
+# Since the memory requirements of different systems are different and it
+# has no effect on the software's final result, the minimum size of an
+# allocated array to warrant a mapping to HDD/SSD instead of RAM must also
+# be defined here. This value will be used in the programs that support
+# this feature.
+MINMAPSIZE = 1000000000
diff --git a/reproduce/src/make/initialize.mk b/reproduce/src/make/initialize.mk
index 3125399..7854c2f 100644
--- a/reproduce/src/make/initialize.mk
+++ b/reproduce/src/make/initialize.mk
@@ -129,7 +129,9 @@ reproduce/build: | $(BDIR)
 # want it to be rebuilt every time.
 .PHONY: all clean distclean clean-mmap $(mtexdir)/initialize.tex
 distclean: clean; rm -f $(pconfdir)/LOCAL.mk
+# --------- Delete for no Gnuastro ---------
 clean-mmap:; rm -f reproduce/config/gnuastro/mmap*
+# ------------------------------------------
 clean: clean-mmap
 ifeq ($(configure-run),yes)
 	rm -rf $(BDIR)
@@ -153,9 +155,11 @@ $(mtexdir)/initialize.tex: | $(mtexdir)
 	@v=$$(git describe --dirty --always);                      \
 	echo "\newcommand{\pipelineversion}{$$v}"  > $@
 
+# --------- Delete for no Gnuastro ---------
         # Version of Gnuastro.
 	@v=$$(astnoisechisel --version | awk 'NR==1{print $$NF}'); \
 	echo "\newcommand{\gnuastroversion}{$$v}" >> $@
+# ------------------------------------------
 
         # Location of the build directory (for LaTeX inputs).
 	@echo "\newcommand{\bdir}{$(BDIR)}"       >> $@