diff options
Diffstat (limited to 'reproduce/software/config')
| -rw-r--r-- | reproduce/software/config/gnuastro/astbuildprog.conf | 16 | ||||
| -rw-r--r-- | reproduce/software/config/gnuastro/astconvertt.conf | 33 | ||||
| -rw-r--r-- | reproduce/software/config/gnuastro/aststatistics.conf | 36 | ||||
| -rw-r--r-- | reproduce/software/config/gnuastro/gnuastro.conf | 37 | ||||
| -rw-r--r-- | reproduce/software/config/installation/LOCAL.mk.in | 16 | ||||
| -rw-r--r-- | reproduce/software/config/installation/numpy-scipy.cfg | 46 | ||||
| -rw-r--r-- | reproduce/software/config/installation/texlive.conf | 35 | ||||
| -rw-r--r-- | reproduce/software/config/installation/texlive.mk | 22 | ||||
| -rw-r--r-- | reproduce/software/config/installation/versions.mk | 123 |
9 files changed, 364 insertions, 0 deletions
diff --git a/reproduce/software/config/gnuastro/astbuildprog.conf b/reproduce/software/config/gnuastro/astbuildprog.conf new file mode 100644 index 0000000..c15baf1 --- /dev/null +++ b/reproduce/software/config/gnuastro/astbuildprog.conf @@ -0,0 +1,16 @@ +# BuildProgram's configuration file depends on the build and is installed +# along with the rest of Gnuastro. So we'll set any specific configuration +# we want here, then import those. +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + +# To keep the program's compiled excutable file, comment this line. +deletecompiled 1 + +# Import the built configuration file +config .local/etc/astbuildprog.conf
\ No newline at end of file diff --git a/reproduce/software/config/gnuastro/astconvertt.conf b/reproduce/software/config/gnuastro/astconvertt.conf new file mode 100644 index 0000000..6466455 --- /dev/null +++ b/reproduce/software/config/gnuastro/astconvertt.conf @@ -0,0 +1,33 @@ +# Default parameters (System) for ConvertType. +# ConvertType is part of GNU Astronomy Utitlies. +# +# Use the long option name of each parameter followed by a value. The name +# and value should be separated by atleast one white-space character (for +# example ` '[space], or tab). Lines starting with `#' are ignored. +# +# For more information, please run these commands: +# +# $ astconvertt --help # Full list of options, short doc. +# $ astconvertt -P # Print all options and used values. +# $ info astconvertt # All options and input/output. +# $ info gnuastro "Configuration files" # How to use configuration files. +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + +# Input: + +# Output: + quality 100 + widthincm 10.0 + borderwidth 1 + output jpg + +# Flux: + invert 0 + +# Common options diff --git a/reproduce/software/config/gnuastro/aststatistics.conf b/reproduce/software/config/gnuastro/aststatistics.conf new file mode 100644 index 0000000..1d13e3f --- /dev/null +++ b/reproduce/software/config/gnuastro/aststatistics.conf @@ -0,0 +1,36 @@ +# Default parameters (System) for Statistics. +# Statistics is part of GNU Astronomy Utitlies. +# +# Use the long option name of each parameter followed by a value. The name +# and value should be separated by atleast one white-space character (for +# example ` '[space], or tab). Lines starting with `#' are ignored. +# +# For more information, please run these commands: +# +# $ aststatistics --help # Full list of options, short doc. +# $ aststatistics -P # Print all options and used values. +# $ info aststatistics # All options and input/output. +# $ info gnuastro "Configuration files" # How to use configuration files. +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + +# Input image: + +# Sky and its STD settings + khdu 1 + meanmedqdiff 0.005 + outliersigma 10 + outliersclip 3,0.2 + smoothwidth 3 + sclipparams 3,0.1 + +# Histogram and CFP settings + numasciibins 70 + asciiheight 10 + numbins 100 + mirrordist 1.5 diff --git a/reproduce/software/config/gnuastro/gnuastro.conf b/reproduce/software/config/gnuastro/gnuastro.conf new file mode 100644 index 0000000..57fcadc --- /dev/null +++ b/reproduce/software/config/gnuastro/gnuastro.conf @@ -0,0 +1,37 @@ +# Default values for the common options to all the programs in GNU +# Astronomy Utitlies. +# +# IMPORTANT NOTE: The `lastconfig' option is very important in a +# reproducible environment. Because we don't want any of Gnuastro's +# programs to go into an un-controlled environment (user or system wide +# configuration files). +# +# The rest of this configuration file is taken from the default Gnuastro +# configuration from its source (`bin/gnuastro.conf'). +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + +# Local project settings (`config' has to be before `lastconfig'). + config .gnuastro/gnuastro-local.conf + lastconfig 1 + +# Input: + hdu 1 + ignorecase 1 + searchin name + +# Tessellation + tilesize 50,50 + numchannels 1,1 + remainderfrac 0.1 + workoverch 0 + interpnumngb 9 + interponlyblank 0 + +# Output: + tableformat fits-binary
\ No newline at end of file diff --git a/reproduce/software/config/installation/LOCAL.mk.in b/reproduce/software/config/installation/LOCAL.mk.in new file mode 100644 index 0000000..785bb6a --- /dev/null +++ b/reproduce/software/config/installation/LOCAL.mk.in @@ -0,0 +1,16 @@ +# Local project configuration. +# +# This is just a template for the `./configure' script to fill in. Please +# don't make any change to this file. +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. +BDIR = @bdir@ +INDIR = @indir@ +DEPENDENCIES-DIR = @ddir@ +DOWNLOADER = @downloader@ +GROUP-NAME = @groupname@ diff --git a/reproduce/software/config/installation/numpy-scipy.cfg b/reproduce/software/config/installation/numpy-scipy.cfg new file mode 100644 index 0000000..4b7a7b0 --- /dev/null +++ b/reproduce/software/config/installation/numpy-scipy.cfg @@ -0,0 +1,46 @@ +# THIS IS A COPY OF NUMPY'S site.cfg.example, CUSTOMIZED FOR THIS TEMPLATE +# ------------------------------------------------------------------------ + +# This file provides configuration information about non-Python +# dependencies for numpy.distutils-using packages. Create a file like this +# called "site.cfg" next to your package's setup.py file and fill in the +# appropriate sections. Not all packages will use all sections so you +# should leave out sections that your package does not use. +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + +# IMPORTANT NOTE +# -------------- +# +# The `ALL' grouping does't apply to ATLAS!!!!! + + [ALL] + library_dirs = @LIBDIR@ + include_dirs = @INCDIR@ + + +# FFT libraries +# ------------- +# There are two FFT libraries that we can configure here: FFTW (2 and 3) and djbfft. +# Note that these libraries are not used by numpy or scipy. +# +# http://fftw.org/ +# https://cr.yp.to/djbfft.html +# +# Given only this section, numpy.distutils will try to figure out which version +# of FFTW you are using. + +# Even with this section, Numpy apparently does not use fftw. But we will +# keep it here for the future (if a solution is found). +[fftw] +libraries = fftw3 +# +# For djbfft, numpy.distutils will look for either djbfft.a or libdjbfft.a . +#[djbfft] +#include_dirs = /usr/local/djbfft/include +#library_dirs = /usr/local/djbfft/lib diff --git a/reproduce/software/config/installation/texlive.conf b/reproduce/software/config/installation/texlive.conf new file mode 100644 index 0000000..53054e1 --- /dev/null +++ b/reproduce/software/config/installation/texlive.conf @@ -0,0 +1,35 @@ +# Basic profile for build. Values to set: +# +# installdir: Install directory +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. +selected_scheme scheme-basic +TEXDIR @installdir@/texlive/2018 +TEXMFCONFIG @installdir@/texlive2018/texmf-config +TEXMFLOCAL @installdir@/texlive/texmf-local +TEXMFSYSCONFIG @installdir@/texlive/2018/texmf-config +TEXMFSYSVAR @installdir@/texlive/2018/texmf-var +TEXMFVAR @installdir@/texlive2018/texmf-var +instopt_adjustpath 0 +instopt_adjustrepo 1 +instopt_letter 0 +instopt_portable 0 +instopt_write18_restricted 1 +tlpdbopt_autobackup 1 +tlpdbopt_backupdir @installdir@/texlive/2018/backups +tlpdbopt_create_formats 1 +tlpdbopt_desktop_integration 1 +tlpdbopt_file_assocs 1 +tlpdbopt_generate_updmap 0 +tlpdbopt_install_docfiles 1 +tlpdbopt_install_srcfiles 1 +tlpdbopt_post_code 1 +tlpdbopt_sys_bin @installdir@/bin +tlpdbopt_sys_info @installdir@/share/info +tlpdbopt_sys_man @installdir@/share/man +tlpdbopt_w32_multi_user 1 diff --git a/reproduce/software/config/installation/texlive.mk b/reproduce/software/config/installation/texlive.mk new file mode 100644 index 0000000..0acf5ab --- /dev/null +++ b/reproduce/software/config/installation/texlive.mk @@ -0,0 +1,22 @@ +# Necessary packages to install in TeX Live. +# +# If any extra TeX package is necessary to build your paper, just add its +# name to this variable (you can check in `ctan.org' to find the official +# name). +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# +# 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. + + +# Note on `tex' and `fancyhdr': These two packages are installed along with +# the basic installation scheme that we used to install tlmgr, they will be +# ignored in the `tlmgr install' command, but will be used later when we +# want their versions. +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 diff --git a/reproduce/software/config/installation/versions.mk b/reproduce/software/config/installation/versions.mk new file mode 100644 index 0000000..149f9ae --- /dev/null +++ b/reproduce/software/config/installation/versions.mk @@ -0,0 +1,123 @@ +# Versions of the various dependencies +# +# Copyright (C) 2018-2019 Mohammad Akhlaghi <mohammad@akhlaghi.org> +# Copyright (C) 2019 Raul Infante-Sainz <infantesainz@gmail.com> +# +# 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/>. + +# C/C++ programs and libraries. +atlas-version = 3.10.3 +bash-version = 5.0 +binutils-version = 2.31.1 +cfitsio-version = 3.45 +cmake-version = 3.14.2 +coreutils-version = 8.31 +curl-version = 7.63.0 +diffutils-version = 3.7 +fftw-version = 3.3.8 +file-version = 5.36 +findutils-version = 4.6.0.199-e3fc +flock-version = 0.2.3 +freetype-version = 2.9 +gawk-version = 5.0.0 +gcc-version = 8.3.0 +ghostscript-version = 9.26 +git-version = 2.21.0 +gmp-version = 6.1.2 +gnuastro-version = 0.8 +grep-version = 3.3 +gsl-version = 2.5 +gzip-version = 1.10 +hdf5-version = 1.10.5 +isl-version = 0.18 +libbsd-version = 0.9.1 +libffi-version = 3.2.1 +libjpeg-version = v9b +libpng-version = 1.6.36 +libtiff-version = 4.0.10 +libtool-version = 2.4.6 +lzip-version = 1.20 +m4-version = 1.4.18 +make-version = 4.2.90 +metastore-version = 1.1.2-23-fa9170b +mpfr-version = 4.0.2 +mpc-version = 1.1.0 +ncurses-version = 6.1 +openblas-version = 0.3.5 +openmpi-version = 4.0.1 +openssl-version = 1.1.1a +patchelf-version = 0.9 +pkgconfig-version = 0.29.2 +python-version = 3.7.3 +readline-version = 8.0 +sed-version = 4.7 +tar-version = 1.32 +unzip-version = 6.0 +wget-version = 1.20.3 +which-version = 2.21 +xz-version = 5.2.4 +zip-version = 3.0 +zlib-version = 1.2.11 + +# Special libraries +# ----------------- +# +# When updating the version of these libraries, please look into the build +# rule first: In one way or another, the version string becomes necessary +# during their build and must be accounted for. +bzip2-version = 1.0.6 +lapack-version = 3.8.0 +libgit2-version = 0.26.0 +wcslib-version = 6.2 + +# Python packages +# --------------- +# +# IMPORTANT: Fix url in `reproduce/src/make/dependencies.mk' +# if changing the version +asn1crypto-version = 0.24.0 +astroquery-version = 0.3.9 +astropy-version = 3.1.1 +beautifulsoup4-version = 4.7.1 +certifi-version = 2018.11.29 +cffi-version = 1.12.2 +chardet-version = 3.0.4 +cryptography-version = 2.6.1 +cycler-version = 0.10.0 +cython-version = 0.29.6 +entrypoints-version = 0.3 +h5py-version = 2.9.0 +html5lib-version = 1.0.1 +idna-version = 2.8 +jeepney-version = 0.4 +kiwisolver-version = 1.0.1 +keyring-version = 18.0.0 +matplotlib-version = 3.0.2 +mpi4py-version = 3.0.1 +numpy-version = 1.16.2 +pip-version = 19.0.2 +pycparser-version = 2.19 +pyparsing-version = 2.3.1 +pypkgconfig-version = 1.5.1 +python-dateutil-version = 2.8.0 +requests-version = 2.21.0 +scipy-version = 1.2.1 +secretstorage-version = 3.1.1 +setuptools-version = 40.8.0 +setuptools_scm-version = 3.2.0 +six-version = 1.12.0 +soupsieve-version = 1.8 +urllib3-version = 1.24.1 +virtualenv-version = 16.4.0 +webencodings-version = 0.5.1 |