Replaced all occurances of pipeline in text

All occurances of "pipeline" have been chanaged to "project" or "template"
withint the text (comments, READMEs, and comments) of the template. The
main template branch is now also named `template'.

This was all because `pipeline' is too generic and couldn't be
distinguished from the base, and customized project.

1 files changed, 17 insertions, 23 deletions

diff --git a/reproduce/src/make/initialize.mk b/reproduce/src/make/initialize.mk
index f9e054f..cd533f2 100644
--- a/reproduce/src/make/initialize.mk
+++ b/reproduce/src/make/initialize.mk
@@ -1,4 +1,4 @@
-# Initialize the reproduction pipeline.
+# Project initialization.
 #
 # Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org>
 #
@@ -22,14 +22,14 @@
 # High-level directory definitions
 # --------------------------------
 #
-# Basic directories that are used throughout the whole pipeline.
+# Basic directories that are used throughout the project.
 #
 # Locks are used to make sure that an operation is done in series not in
 # parallel (even if Make is run in parallel with the `-j' option). The most
 # common case is downloads which are better done in series and not in
 # parallel. Also, some programs may not be thread-safe, therefore it will
-# be necessary to put a lock on them. This pipeline uses the `flock'
-# program to achieve this.
+# be necessary to put a lock on them. This project uses the `flock' program
+# to achieve this.
 texdir      = $(BDIR)/tex
 srcdir      = reproduce/src
 lockdir     = $(BDIR)/locks
@@ -48,7 +48,7 @@ gconfdir    = reproduce/config/gnuastro
 # TeX build directory
 # ------------------
 #
-# In scenarios where multiple users are working on the pipeline
+# In scenarios where multiple users are working on the project
 # simultaneously, they can't all build the final paper together, there will
 # be conflicts! It is possible to manage the working on the analysis, so no
 # conflict is caused in that phase, but it would be very slow to only let
@@ -99,7 +99,7 @@ curdir   := $(shell echo $$(pwd))
 # want Make to run the specific version of Bash that we have installed
 # during `./configure' time.
 #
-# Regarding the directories, this pipeline builds its major dependencies
+# Regarding the directories, this project builds its major dependencies
 # itself and doesn't use the local system's default tools. With these
 # environment variables, we are setting it to prefer the software we have
 # build here.
@@ -143,18 +143,12 @@ export MPI_PYTHON3_SITEARCH   :=
 # directories (or possible sub-directories) for individual steps will be
 # defined and added within their own Makefiles.
 #
-# IMPORTANT NOTE for $(BDIR)'s dependency: it only depends on the existance
-# (not the time-stamp) of `$(pconfdir)/LOCAL.mk'. So the user can make any
-# changes within that file and if they don't affect the pipeline. For
-# example a change of the top $(BDIR) name, while the contents are the same
-# as before.
-#
 # The `.SUFFIXES' rule with no prerequisite is defined to eliminate all the
 # default implicit rules. The default implicit rules are to do with
 # programming (for example converting `.c' files to `.o' files). The
 # problem they cause is when you want to debug the make command with `-d'
 # option: they add too many extra checks that make it hard to find what you
-# are looking for in this pipeline.
+# are looking for in the outputs.
 .SUFFIXES:
 $(lockdir): | $(BDIR); mkdir $@
 $(texbdir): | $(texdir); mkdir $@
@@ -172,8 +166,8 @@ $(tikzdir): | $(texbdir); mkdir $@ && ln -fs $@ tex/tikz
 #
 # Only `$(mtexdir)/initialize.tex' corresponds to a file. This is because
 # we want to ensure that the file is always built in every run: it contains
-# the pipeline version which may change between two separate runs, even
-# when no file actually differs.
+# the project version which may change between two separate runs, even when
+# no file actually differs.
 packagebasename := $(shell echo paper-$$(git describe --dirty --always))
 packagecontents = $(texdir)/$(packagebasename)
 .PHONY: all clean dist dist-zip distclean clean-mmap $(packagecontents) \
@@ -260,7 +254,7 @@ $(packagecontents): | $(texdir)
 	rm $$dir/reproduce/config/pipeline/LOCAL.mk
 	rm $$dir/reproduce/config/gnuastro/gnuastro-local.conf
 
-        # PIPELINE SPECIFIC: under this comment, copy any other file for
+        # PROJECT SPECIFIC: under this comment, copy any other file for
         # packaging, or remove any of the copied files above to suite your
         # project.
 
@@ -313,7 +307,7 @@ pvcheck = prog="$(strip $(1))";                                          \
 	  if [ "x$$verop" = x ]; then V="--version"; else V=$$verop; fi; \
 	  v=$$($$prog $$V | awk '/'$$ver'/{print "y"; exit 0}');         \
 	  if [ x$$v != xy ]; then                                        \
-	    echo; echo "PIPELINE ERROR: Not running $$name $$ver"; echo; \
+	    echo; echo "PROJECT ERROR: Not running $$name $$ver"; echo;  \
 	    exit 1;                                                      \
 	  fi;                                                            \
 	  echo "\newcommand{\\$$macro}{$$ver}" >> $@
@@ -325,7 +319,7 @@ lvcheck = idir=$(BDIR)/dependencies/installed/include;                   \
 	  macro="$(strip $(4))";                                         \
 	  v=$$(awk '/^\#/&&/define/&&/'$$ver'/{print "y";exit 0}' $$f);  \
 	  if [ x$$v != xy ]; then                                        \
-	    echo; echo "PIPELINE ERROR: Not linking with $$name $$ver";  \
+	    echo; echo "PROJECT ERROR: Not linking with $$name $$ver";   \
 	    echo; exit 1;                                                \
 	  fi;                                                            \
 	  echo "\newcommand{\\$$macro}{$$ver}" >> $@
@@ -333,15 +327,15 @@ lvcheck = idir=$(BDIR)/dependencies/installed/include;                   \
 
 
 
-# Pipeline initialization results
-# -------------------------------
+# Project initialization results
+# ------------------------------
 #
-# This file will store some basic info about the pipeline that is necessary
+# This file will store some basic info about the project that is necessary
 # for the final PDF. Since these are not version controlled, it must be
-# calculated everytime the pipeline is run. So even though this file
+# calculated everytime the project is run. So even though this file
 # actually exists, it is also aded as a `.PHONY' target above.
 $(mtexdir)/initialize.tex: | $(mtexdir)
 
-        # Version of the pipeline and build directory (for LaTeX inputs).
+        # Version of the project.
 	@v=$$(git describe --dirty --always);
 	echo "\newcommand{\pipelineversion}{$$v}" > $@