pegi3s/sppider

Sponsored OSS

By i3S

Updated 4 months ago

Automatically submit data to SPPIDER Web Server (http://sppider.cchmc.org/) docker image.

Image
Data Science
Machine Learning & AI

97

This image belongs to a larger project called Bioinformatics Docker Images Project (http://pegi3s.github.io/dockerfiles)

(Please note that the original software licenses still apply)

This image facilitates the usage of SPPIDER (Solvent accessibility based Protein-Protein Interface iDEntification and Recognition) Prediction Server, a protein interface recognition server.

Using the SPPIDER Server image in Linux

You should adapt and run the following command: docker run --rm -v /your/data/dir:/data pegi3s/sppider bash -c "/opt/run"

In this command, you should replace:

  • /your/data/dir to point to the directory that contains the input PDB files you want to analyze.
Note 1

In order to be notified of the results you need to create a file called parameters.sppider filled with the following information:

-F EMail="your_mail_address"

which must be in the same folder as the input data.

Note 2

Don't forget to keep a delay between requests for at least 15 seconds or your IP address will be banned, so do not run this image multiple times. For additional information please access SPPIDER manual here.

Note 3

For Developers: To see Formfind information, just run: cat ./opt/info.

Docker Pull Command

docker pull pegi3s/sppider