BEAR Applications

DECODE 20220120-fosscuda-2020b

There is a newer version of DECODE

DECODE is a Python and Pytorch based deep learning tool for single molecule localization microscopy (SMLM).

Accessing DECODE 20220120-fosscuda-2020b

To load the module for DECODE 20220120-fosscuda-2020b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load DECODE/20220120-fosscuda-2020b

BEAR Apps Version

2020b

Architectures

EL8-haswell (GPUs: NVIDIA P100)

The listed architectures consist of two part: OS-CPU.

• BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
• BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

Extensions

• DECODE 20220120
• Deprecated 1.2.13
• importlib_resources 5.4.0
• seaborn 0.10.0
• Spline 0.10.0

More Information

For more information visit the DECODE website.

Dependencies

This version of DECODE has a direct dependency on: fosscuda/2020b GitPython/3.1.14-GCCcore-10.2.0 h5py/3.1.0-fosscuda-2020b matplotlib/3.3.3-fosscuda-2020b pybind11/2.6.0-GCCcore-10.2.0 Python/3.8.6-GCCcore-10.2.0 PyTorch/1.7.1-fosscuda-2020b scikit-image/0.18.1-fosscuda-2020b scikit-learn/0.23.2-fosscuda-2020b SciPy-bundle/2020.11-fosscuda-2020b TensorFlow/2.4.1-fosscuda-2020b tqdm/4.56.2-GCCcore-10.2.0

Other Versions

These versions of DECODE are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 21st March 2022