Cirrus migration to E1000 system
There was a full service maintenance on Tuesday 12th March 2024 from 0900 - 1700 GMT which allowed some major changes on the Cirrus service.
Tip
If you need help or have questions on the Cirrus E1000 migration please contact the Cirrus service desk
Change of authentication protocol
We changed the authentication protocol on Cirrus from ldap to freeipa.
This change was transparent to users but you may have noticed a change from username@cirrus to username@eidf within your SAFE account.
You should be able to connect using your existing Cirrus authentication factors i.e. your ssh key pair and your TOTP token.
If you do experience issues, then please reset your tokens and try to reconnect. If problems persist then please contact the service desk.
Further details on Connecting to Cirrus
New /work file system
We replaced the existing lustre /work file system with a new more performant lustre file system, E1000.
The old /work file system will be available as read-only and we ask you to copy any files you require onto the new /work file system.
The old read-only file system was be removed on 15th May 024 so please ensure all data is retrieved by then.
For username in project x01, to copy data from
/mnt/lustre/indy2lfs/work/x01/x01/username/directory_to_copy
to
/work/x01/x01/username/destination_directory
you would do this by running:
cp -r /mnt/lustre/indy2lfs/work/x01/x01/username/directory_to_copy \
/work/x01/x01/username/destination_directory
Further details of Data Management and Transfer on Cirrus
Note
Slurm Pending Jobs
As the underlying pathname for /work will be changing with the addition of the new file system, all of the pending work in the slurm queue will be removed during the migration. When the service is returned, please resubmit your slurm jobs to Cirrus.
CSE Module Updates
Our Computational Science and Engineering (CSE) Team have taken the opportunity of the arrival of the new file system to update modules and also remove older versions of modules. A full list of the changes to the modules can be found below.
Please contact the service desk if you have concerns about the removal of any of the older modules.
REMOVED MODULES
| Package/module | Advice for users |
|---|---|
| altair-hwsolvers/13.0.213 | Please contact the service desk if you wish to use Altair Hyperworks. |
| altair-hwsolvers/14.0.210 | Please contact the service desk if you wish to use Altair Hyperworks. |
| ansys/18.0 | Please contact the service desk if you wish to use ANSYS Fluent. |
| ansys/19.0 | Please contact the service desk if you wish to use ANSYS Fluent. |
|
autoconf/2.69 |
Please use autoconf/2.71 |
|
bison/3.6.4 |
Please use bison/3.8.2 |
|
boost/1.67.0 |
Please use boost/1.84.0 |
|
boost/1.73.0 |
Please use boost/1.84.0 |
|
cmake/3.17.3 cmake/3.22.1 |
Please use cmake/3.25.2 |
|
CUnit/2.1.3 |
Please contact the service desk if you wish to use CUnit. |
|
dolfin/2019.1.0-intel-mpi dolfin/2019.1.0-mpt |
Dolfin is no longer supported and will not be replaced. |
|
eclipse/2020-09 |
Please contact the service desk if you wish to use Eclipse. |
|
expat/2.2.9 |
Please use expat/2.6.0 |
|
fenics/2019.1.0-intel-mpi fenics/2019.1.0-mpt |
Fenics is no longer supported and will not be replaced. |
|
fftw/3.3.8-gcc8-ompi4 fftw/3.3.8-intel19 fftw/3.3.9-ompi4-cuda11-gcc8 fftw/3.3.8-intel18 fftw/3.3.9-impi19-gcc8 fftw/3.3.10-intel19-mpt225 fftw/3.3.10-ompi4-cuda116-gcc8 |
Please use one of the following fftw/3.3.10-gcc10.2-mpt2.25 fftw/3.3.10-gcc10.2-impi20.4 fftw/3.3.10-gcc10.2-ompi4-cuda11.8 fftw/3.3.10-gcc12.3-impi20.4 fftw/3.3.10-intel20.4-impi20.4 |
|
flacs/10.9.1 flacs-cfd/20.1 flacs-cfd/20.2 flacs-cfd/21.1 flacs-cfd/21.2 flacs-cfd/22.1 |
Please contact the helpdesk if you wish to use FLACS. |
|
forge/24.0 |
Please use forge/24.0 |
|
gcc/6.2.0 |
Please use gcc/8.2.0 or later |
|
gcc/6.3.0 |
Please use gcc/8.2.0 or later |
|
gcc/12.2.0-offload |
Please use gcc/12.3.0-offload |
|
gdal/2.1.2-gcc gdal/2.1.2-intel gdal/2.4.4-gcc |
Please use gcc/3.6.2-gcc |
|
git/2.21.0 |
Please use git/2.37.3 |
|
gmp/6.2.0-intel gmp/6.2.1-mpt gmp/6.3.0-mpt |
Please use gmp/6.3.0-gcc or gmp/6.3.0-intel |
|
gnu-parallel/20200522-gcc6 |
Please use gnu-parallel/20240122-gcc10 |
|
gromacs/2022.1 |
Please use one of: |
|
hdf5parallel/1.10.4-intel18-impi18 |
Please use hdf5parallel/1.14.3-intel20-impi20 |
|
hdf5parallel/1.10.6-gcc6-mpt225 |
Please use hdf5parallel/1.14.3-gcc10-mpt225 |
|
hdf5parallel/1.10.6-intel18-mpt225 |
Please use hdf5parallel/1.14.3-intel20-mpt225 |
|
hdf5parallel/1.10.6-intel19-mpt225 |
Please use hdf5parallel/1.14.3-intel20-mpt225 |
|
hdf5serial/1.10.6-intel18 |
Please use hdf5serial/1.14.3-intel20 |
|
horovod/0.25.0 horovod/0.25.0-gpu horovod/0.26.1-gpu |
Please use one of the pytorch or tensorflow modules |
|
htop/3.1.2 |
Please use htop/3.2.1 |
|
intel 18.0 compilers etc |
Please use Intel 19.5 or later; or oneAPI |
|
intel 19.0 compilers etc |
Please use Intel 19.5 or later |
|
lammps/23Jun2022_intel19_mpt |
Please use one of: lammps/15Dec2023-gcc10.2-impi20.4 |
|
libxkbcommon/1.0.1 |
Please contact the service desk if you wish to use libxkbcommon. |
|
libnsl/1.3.0 |
Please contact the helpdesk if you wish to use libnsl. |
|
libpng/1.6.30 |
This is no longer supported as the central module. |
|
libtirpc/1.2.6 |
Please contact the helpdesk if you wish to use libtirpc. |
|
libtool/2.4.6 |
Please use libtool/2.4.7 |
| nco/4.9.3 | Please use nco/5.1.9 |
| nco/4.9.7 | Please use nco/5.1.9 |
| ncview/2.1.7 | Please use ncview/2.1.10 |
|
netcdf-parallel/4.6.2-intel18-impi18 |
Please use netcdf-parallel/4.9.2-intel20-impi20 |
|
netcdf-parallel/4.6.2-intel19-mpt225 |
Please use netcdf-parallel/4.9.2-intel20-mpt225 |
|
nvidia/cudnn/8.2.1-cuda-11.6 nvidia/cudnn/8.2.1-cuda-11.6 nvidia/cudnn/8.9.4-cuda-11.6 nvidia/cudnn/8.9.7-cuda-11.6 |
Please use one of the following nvidia/cudnn/8.6.0-cuda-11.6 nvidia/cudnn/8.6.0-cuda-11.6 |
|
nvidia/nvhpc/22.11-no-gcc |
Use nvidia/nvhpc/22.11 |
|
nvidia/tensorrt/7.2.3.4 |
Please use nvidia/tensorrt/8.4.3.1-u2 |
|
openfoam/v8.0 |
Please consider a later version, e.g., v10.0 |
|
openfoam/v9.0 |
Please consider a later version, e.g, v11.0 |
|
openfoam/v2006 |
Please consider a later version, e.g., v2306 |
|
openmpi/4.1.2-cuda-11.6 openmpi/4.1.4 openmpi/4.1.4-cuda-11.6 openmpi/4.1.4-cuda-11.6-nvfortran openmpi/4.1.4-cuda-11.8 openmpi/4.1.4-cuda-11.8-nvfortran openmpi/4.1.5 openmpi/4.1.5-cuda-11.6 |
Please use one of the following openmpi/4.1.6 openmpi/4.1.6-cuda-11.6 openmpi/4.1.6-cuda-11.6-nvfortran openmpi/4.1.6-cuda-11.8 openmpi/4.1.6-cuda-11.8-nvfortran |
|
petsc/3.13.2-intel-mpi-18 petsc/3.13.2-mpt |
Please contact the helpdesk if you require a more recent version of PETSc. |
|
pyfr/1.14.0-gpu |
Please use pyfr/1.15.0-gpu |
|
pytorch/1.12.1 pytorch/1.12.1-gpu |
Please use one of the following pytorch/1.13.1 pytorch/1.13.1-gpu |
|
quantum-espresso/6.5-intel-19 |
Please use QE/6.5-intel-20.4 |
|
specfem3d |
Please contact the helpdesk if you wish to use SPECFEM3D |
|
starccm+/14.04.013-R8 starccm+/14.06.013-R8 → 2019.3.1-R8 starccm+/15.02.009-R8 → 2020.1.1-R8 starccm+/15.04.010-R8 → 2020.2.1-R8 starccm+/15.06.008-R8 → 2020.3.1-R8 starccm+/16.02.009 → 2021.1.1 |
Please contact the helpdesk if you wish to use STAR-CCM+ |
|
tensorflow/2.9.1-gpu tensorflow/2.10.0 tensorflow/2.11.0-gpu |
Please use one of the following tensorflow/2.13.0 tensorflow/2.15.0 tensorflow/2.13.0-gpu |
|
ucx/1.9.0 ucx/1.9.0-cuda-11.6 ucx/1.9.0-cuda-11.8 |
Please use one of the following ucx/1.15.0 ucx/1.15.0-cuda-11.6 ucx/1.15.0-cuda-11.8 |
|
vasp-5.4.4-intel19-mpt220 |
|
|
zlib/1.2.11 |
Please use zlib/1.3.1 |