Imported recent changes in Maneage, minor conflicts fixed

A few small conflicts showed up here and there. They are fixed with this
merge.

9 files changed, 67 insertions, 82 deletions

diff --git a/reproduce/analysis/bash/download-multi-try b/reproduce/analysis/bash/download-multi-try
index 7a5f8f2..4136df4 100755
--- a/reproduce/analysis/bash/download-multi-try
+++ b/reproduce/analysis/bash/download-multi-try
@@ -28,15 +28,15 @@
 #
 # Copyright (C) 2019-2020 Mohammad Akhlaghi <mohammad@akhlaghi.org>
 #
-# This script 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 script is part of Maneage. Maneage 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 script 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. See <http://www.gnu.org/licenses/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/config/verify-outputs.conf b/reproduce/analysis/config/verify-outputs.conf
index 0542c53..e4ef479 100644
--- a/reproduce/analysis/config/verify-outputs.conf
+++ b/reproduce/analysis/config/verify-outputs.conf
@@ -1,2 +1,2 @@
-# To disable verification of output datasets set this variable to yes
+# To enable verification of output datasets set this variable to yes
 verify-outputs =
diff --git a/reproduce/analysis/make/download.mk b/reproduce/analysis/make/download.mk
index ed2b0a0..795cb0e 100644
--- a/reproduce/analysis/make/download.mk
+++ b/reproduce/analysis/make/download.mk
@@ -7,15 +7,15 @@
 #
 # 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 part of Maneage. Maneage 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. See <http://www.gnu.org/licenses/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/make/initialize.mk b/reproduce/analysis/make/initialize.mk
index c804aaf..24f74ec 100644
--- a/reproduce/analysis/make/initialize.mk
+++ b/reproduce/analysis/make/initialize.mk
@@ -2,18 +2,15 @@
 #
 # 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 part of Maneage. Maneage 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/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
@@ -39,7 +36,7 @@ bashdir     = reproduce/analysis/bash
 pconfdir    = reproduce/analysis/config
 installdir  = $(BDIR)/software/installed
 # --------- Delete for no Gnuastro ---------
-gconfdir    = reproduce/software/config/gnuastro
+gconfdir    = reproduce/analysis/config/gnuastro
 # ------------------------------------------
 
 
diff --git a/reproduce/analysis/make/paper.mk b/reproduce/analysis/make/paper.mk
index 67db364..e7949d0 100644
--- a/reproduce/analysis/make/paper.mk
+++ b/reproduce/analysis/make/paper.mk
@@ -2,18 +2,15 @@
 #
 # 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 part of Maneage. Maneage 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/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/make/prepare.mk b/reproduce/analysis/make/prepare.mk
index 36f25e7..9f80afe 100644
--- a/reproduce/analysis/make/prepare.mk
+++ b/reproduce/analysis/make/prepare.mk
@@ -2,15 +2,15 @@
 #
 # Copyright (C) 2019-2020 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 part of Maneage. Maneage 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. See <http://www.gnu.org/licenses/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/make/top-make.mk b/reproduce/analysis/make/top-make.mk
index 43f67d9..07e8aa8 100644
--- a/reproduce/analysis/make/top-make.mk
+++ b/reproduce/analysis/make/top-make.mk
@@ -2,18 +2,15 @@
 #
 # 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/>.
+# This Makefile is part of Maneage. Maneage 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.
+#
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/make/top-prepare.mk b/reproduce/analysis/make/top-prepare.mk
index be7482c..79b976f 100644
--- a/reproduce/analysis/make/top-prepare.mk
+++ b/reproduce/analysis/make/top-prepare.mk
@@ -6,18 +6,15 @@
 #
 # Copyright (C) 2019-2020 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 part of Maneage. Maneage 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/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.
 
 
 
diff --git a/reproduce/analysis/make/verify.mk b/reproduce/analysis/make/verify.mk
index f0bcf10..117b325 100644
--- a/reproduce/analysis/make/verify.mk
+++ b/reproduce/analysis/make/verify.mk
@@ -2,18 +2,15 @@
 #
 # Copyright (C) 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 file is part of Maneage. Maneage 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/>.
+# Maneage 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. See <http://www.gnu.org/licenses/>.