Advanced Development Topics

Advanced Topics

Installation system

• Installation system for developers

Desktop development

Most of the Scipion graphic user interfaces (GUIs) to visualize EM objects (particles, coordinates, volumes, etc) have been developed in Java, extending Xmipp ShowJ and Particle Picker. Implementation details are available here.

Web development

• Web developments and tools…​.

• Conventions: Description of the conventions followed in Scipion.

Scipion from the command line

There are many things you can do with Scipion using just the command line, like running tests, starting the webserver, or opening a ShowJ viewer. Read this page to learn how.

Profiling and Debugging

• Check what can be reused from here: http://xmipp.cnb.csic.es/twiki/bin/view/Xmipp/DebuggingProfiling, check with Juan if he has some NOTES about profiling

• Debugging in Python: with PyCharm and WinPdb

Virtualization

• Preparing a Scipion image

Scipioncloud

ScipionCloud main "cloud platforms" are Amazon Web Services (AWS) and EGI Federated Cloud (FedCloud)

• ScipionCloud on AWS

• ScipionCloud on FedCloud

• Deploying an HPC cluster on AWS

• Starcluster instance types (AWS)

• ScipionCloud deployments: on FedCloud

• Preparing a Scipion image (useful also for ScipionCloud)

GPU

• GPU purchase guide. Enabling GPU in Scipion

Scipion ubiquity

• Scipion demo

• Scipion live

References

• The original Scipion Wiki