Compile-belt - Revision history

Lothar.brendel: /* setting up the configuration */ +miniconda2

2026-05-20T06:31:10Z

setting up the configuration: +miniconda2

← Older revision		Revision as of 08:31, 20 May 2026
Line 48:		Line 48:
	if [ -d $HOME/pypy2.7-v*-linux64 ]; then		if [ -d $HOME/pypy2.7-v*-linux64 ]; then
	python=$HOME/pypy2.7-v*-linux64/bin/$python		python=$HOME/pypy2.7-v*-linux64/bin/$python
	elif [ -d $HOME/miniconda3 ]; then		elif [ -d $HOME/miniconda2 ]; then
			source $HOME/miniconda2/bin/activate
			elif [ -d $HOME/miniconda3/envs/py27 ]; then
	source $HOME/miniconda3/bin/activate py27		source $HOME/miniconda3/bin/activate py27
	fi		fi

Lothar.brendel: /* Python 2 */ +miniconda2

2026-05-20T06:26:08Z

Python 2: +miniconda2

← Older revision		Revision as of 08:26, 20 May 2026
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	== Python 2 ==		== Python 2 ==

	''belt'' uses an old PETSc version, namely [https://web.cels.anl.gov/projects/petsc/download/release-snapshots/petsc-3.1-p8.tar.gz 3.1-p8] from March 2011. That version needs Python < 3 for its configuration, with the last version (Python 2.7.18) having been discontinued in 2020 and dropped from the major Linux distros around 2024. If there is really no Python 2 on the machine, ~~two~~ possible solutions<ref>The most lightweight variant would be to get a [https://git.sr.ht/~knazarov/static-python statically built python]2.7 binary to work, or at least a [https://pypi.org/project/portable-python portable] one.</ref> are:		''belt'' uses an old PETSc version, namely [https://web.cels.anl.gov/projects/petsc/download/release-snapshots/petsc-3.1-p8.tar.gz 3.1-p8] from March 2011. That version needs Python < 3 for its configuration, with the last version (Python 2.7.18) having been discontinued in 2020 and dropped from the major Linux distros around 2024. If there is really no Python 2 on the machine, possible solutions<ref>The most lightweight variant would be to get a [https://git.sr.ht/~knazarov/static-python statically built python]2.7 binary to work, or at least a [https://pypi.org/project/portable-python portable] one.</ref> are:

	# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.20-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.		# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.22-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.
	# ~~As an alternative~~ (~~if there is~~ free ~~access~~ to ~~the internet~~)~~, install~~ [https://www.anaconda.com/docs/getting-started/miniconda/main ~~miniconda~~] ~~into your $HOME and~~ create a Python 2.7 environment: <code>conda create -n py27 python=2.7</code> (will consume about ~~1GB~~). Don't install anything else into this environment~~. (Because~~ the package ''binutils'' may be pulled in; it provides the miniconda version of the linker <code>ld</code>, which may later confuse <code>make</code>.)		# Install [https://repo.anaconda.com/miniconda/Miniconda2-latest-Linux-x86_64.sh miniconda2] into your $HOME (will consume about 237MB) and use the contained <code>miniconda2/bin/python2</code> as Python interpreter. ([https://www.anaconda.com/legal free for academic research])
			# If you are using (or going to use) [https://www.anaconda.com/docs/getting-started/miniconda/main miniconda3] anyway, create a Python 2.7 environment: <code>conda create -n py27 python=2.7</code> (will consume about 108MB). Don't install anything else into this environment<ref>That's because the package ''binutils'' may be pulled in; it provides the miniconda version of the linker <code>ld</code>, which may later confuse <code>make</code>.</ref>

Lothar.brendel: /* PETSc configuration */ micromamba

2026-05-18T13:16:14Z

PETSc configuration: micromamba

← Older revision		Revision as of 15:16, 18 May 2026
Line 94:		Line 94:

	=== PETSc configuration ===		=== PETSc configuration ===

			(Regarding a Python 2.7 installation, [https://mamba.readthedocs.io/en/latest/user_guide/micromamba.html micromamba] is available.)

	==== Intel compiler + Intel MPI ====		==== Intel compiler + Intel MPI ====

Lothar.brendel: /* adjustments on specific computers */ +JUWELS

2026-05-18T12:53:57Z

adjustments on specific computers: +JUWELS

← Older revision		Revision as of 14:53, 18 May 2026
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	* <code>PETSC_LAPACK = mkl_core</code>		* <code>PETSC_LAPACK = mkl_core</code>
	* <code>PETSC_BLAS = mkl_intel_lp64 -lmkl_sequential</code>		* <code>PETSC_BLAS = mkl_intel_lp64 -lmkl_sequential</code>

			== JUWELS@FZJ ==

			The settings are the same as those for [[#amplitUDE]], except for the modules to be loaded:

			module -s load Stages/2025
			module -s load Intel
			module -s load IntelMPI/2021.14.1
			module -s load imkl

	== other ==		== other ==

Lothar.brendel: /* Intel compiler + Intel MPI */

2026-04-24T13:02:35Z

Intel compiler + Intel MPI

← Older revision		Revision as of 15:02, 24 April 2026
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	$python ./config/configure.py PETSC_ARCH=amplitude_intel_impi \		$python ./config/configure.py PETSC_ARCH=amplitude_intel_impi \
	--CFLAGS='' \		--CFLAGS='' \
	--COPTFLAGS=$~~OPT~~ --FOPTFLAGS=$~~OPT~~ \		--COPTFLAGS=$opt --FOPTFLAGS=$opt \
	--with-mpi-dir=$I_MPI_ROOT \		--with-mpi-dir=$I_MPI_ROOT \
	--with-blas-lib=[libmkl_intel_lp64.a,libmkl_sequential.a,libmkl_core.a] --with-lapack-lib=libmkl_core.a \		--with-blas-lib=[libmkl_intel_lp64.a,libmkl_sequential.a,libmkl_core.a] --with-lapack-lib=libmkl_core.a \

Lothar.brendel: /* Intel compiler + Intel MPI */ $

2026-04-24T13:01:12Z

Intel compiler + Intel MPI: $

← Older revision		Revision as of 15:01, 24 April 2026
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	<syntaxhighlight lang="shell">		<syntaxhighlight lang="shell">
	~~python2~~ ./config/configure.py PETSC_ARCH=amplitude_intel_impi \		$python ./config/configure.py PETSC_ARCH=amplitude_intel_impi \
	--CFLAGS='' \		--CFLAGS='' \
	--COPTFLAGS=~~-O3~~ --FOPTFLAGS=~~-O3~~ \		--COPTFLAGS=$OPT --FOPTFLAGS=$OPT \
	--with-mpi-dir=$I_MPI_ROOT \		--with-mpi-dir=$I_MPI_ROOT \
	--with-blas-lib=[libmkl_intel_lp64.a,libmkl_sequential.a,libmkl_core.a] --with-lapack-lib=libmkl_core.a \		--with-blas-lib=[libmkl_intel_lp64.a,libmkl_sequential.a,libmkl_core.a] --with-lapack-lib=libmkl_core.a \

Lothar.brendel: /* makefile_user_machinedefs */ typo

2026-04-02T14:06:50Z

makefile_user_machinedefs: typo

← Older revision		Revision as of 16:06, 2 April 2026
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	* <code>BELT_DIR = $(HOME)/belt</code> <ref name="path"> Adjust to your chosen location.</ref>		* <code>BELT_DIR = $(HOME)/belt</code> <ref name="path"> Adjust to your chosen location.</ref>
	* <code>PETSC_DIR = $(HOME)/petsc-3.1-p8</code> <ref name="path"> Adjust to your chosen location.</ref>		* <code>PETSC_DIR = $(HOME)/petsc-3.1-p8</code> <ref name="path"> Adjust to your chosen location.</ref>
	* <code>PETSC_ARCH =</code> your ~~Choice~~ from PETSc's [[#setting up the configuration\|configuration step]] above		* <code>PETSC_ARCH =</code> your choice from PETSc's [[#setting up the configuration\|configuration step]] above
	* <code>PETSC_LAPACK = lapack</code>		* <code>PETSC_LAPACK = lapack</code>
	* <code>PETSC_BLAS = blas</code>		* <code>PETSC_BLAS = blas</code>

Lothar.brendel: /* Python 2 */ miniconda3 needs the internet

2026-04-02T14:03:47Z

Python 2: miniconda3 needs the internet

← Older revision		Revision as of 16:03, 2 April 2026
Line 23:		Line 23:

	# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.20-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.		# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.20-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.
	# As an alternative, install [https://www.anaconda.com/docs/getting-started/miniconda/main miniconda] into your $HOME and create a Python 2.7 environment: <code>conda create -n py27 python=2.7</code> (will consume about 1GB). Don't install anything else into this environment. (Because the package ''binutils'' may be pulled in; it provides the miniconda version of the linker <code>ld</code>, which may later confuse <code>make</code>.)		# As an alternative (if there is free access to the internet), install [https://www.anaconda.com/docs/getting-started/miniconda/main miniconda] into your $HOME and create a Python 2.7 environment: <code>conda create -n py27 python=2.7</code> (will consume about 1GB). Don't install anything else into this environment. (Because the package ''binutils'' may be pulled in; it provides the miniconda version of the linker <code>ld</code>, which may later confuse <code>make</code>.)

Lothar.brendel: /* Python 2 */ wording

2026-04-02T13:59:48Z

Python 2: wording

← Older revision		Revision as of 15:59, 2 April 2026
Line 20:		Line 20:
	== Python 2 ==		== Python 2 ==

	''belt'' ~~needs~~ an old PETSc version, namely [https://web.cels.anl.gov/projects/petsc/download/release-snapshots/petsc-3.1-p8.tar.gz 3.1-p8] from March 2011. That version needs Python < 3 for its configuration, with the last version (Python 2.7.18) having been discontinued in 2020 and dropped from the major Linux distros around 2024. If there is really no Python 2 on the machine, two possible solutions<ref>The most lightweight variant would be to get a [https://git.sr.ht/~knazarov/static-python statically built python]2.7 binary to work, or at least a [https://pypi.org/project/portable-python portable] one.</ref> are:		''belt'' uses an old PETSc version, namely [https://web.cels.anl.gov/projects/petsc/download/release-snapshots/petsc-3.1-p8.tar.gz 3.1-p8] from March 2011. That version needs Python < 3 for its configuration, with the last version (Python 2.7.18) having been discontinued in 2020 and dropped from the major Linux distros around 2024. If there is really no Python 2 on the machine, two possible solutions<ref>The most lightweight variant would be to get a [https://git.sr.ht/~knazarov/static-python statically built python]2.7 binary to work, or at least a [https://pypi.org/project/portable-python portable] one.</ref> are:

	# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.20-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.		# Download [https://downloads.python.org/pypy/pypy2.7-v7.3.20-linux64.tar.bz2 pypy2.7], extract it to a suitable location in your $HOME (will consume about 130MB) and use <code>pypy2.7-v*-linux64/bin/python2</code> as Python interpreter.

Lothar.brendel: /* adjustments on specific computers */ +amplitude

2026-04-02T13:58:20Z

adjustments on specific computers: +amplitude

← Older revision		Revision as of 15:58, 2 April 2026
Line 90:		Line 90:

	= adjustments on specific computers =		= adjustments on specific computers =

			== amplitUDE ==

			=== PETSc configuration ===

			==== Intel compiler + Intel MPI ====

			The necessary modules need to be loaded, which can be done in the configuration script:

			<syntaxhighlight lang="shell">
			module -s load compiler/2024.0.0
			module -s load mkl/2024.0
			module -s load mpi # sets I_MPI_ROOT
			</syntaxhighlight>

			And the Python-line becomes:

			<syntaxhighlight lang="shell">
			python2 ./config/configure.py PETSC_ARCH=amplitude_intel_impi \
			--CFLAGS='' \
			--COPTFLAGS=-O3 --FOPTFLAGS=-O3 \
			--with-mpi-dir=$I_MPI_ROOT \
			--with-blas-lib=[libmkl_intel_lp64.a,libmkl_sequential.a,libmkl_core.a] --with-lapack-lib=libmkl_core.a \
			--with-x=0 --with-debugging=0
			</syntaxhighlight>

			=== making PETSc ===

			* Before executing the <code>make PETSC_DIR=</code>... <code>all</code>-line, the three modules from above have to be loaded.
			* <code>make PETSC_DIR=</code>... <code>test</code> will fail when carried out on the login node due to a warning message. That failure can be ignored.

			=== makefile_user_machinedefs ===

			Values differing from above:

			* <code>FC = mpif90</code>
			* <code>PETSC_ARCH = amplitude_intel_impi</code>
			* <code>PETSC_LAPACK = mkl_core</code>
			* <code>PETSC_BLAS = mkl_intel_lp64 -lmkl_sequential</code>

			== other ==

	(to be continued)		(to be continued)