baderlab / baderlab_static_webservers Goto Github PK

There are 6 static BaderLab static websites. Each site is in a stand alone virtual machine running old software. This repo is the documentation on the new versions of these old static websites.

The websites are:

1. POW (pow.baderlab.org) - 192.168.81.143
2. PRM-DB (prm-db.org) - 192.168.81.192
3. pathguide (pathguide.org) - 192.168.81.175
4. DV-IMPACT (dvimpact.baderlab.org / canvd.baderlab.org) - 192.168.81.189
5. MIMP (mimp.baderlab.org) - 192.168.81.141
6. cytoscape wiki (wikiold.cytoscape.org) - 192.168.81.131

Each site has been converted over to a docker and is now running newer versions of software. All servers are running on ubuntu OS and using APT for package managment.

The corresponding dockers are:

1. POW - iweinberger/pow
2. PRM-DB - iweinberger/prm-db
3. pathguide - iweinberger/pathguide
4. DV-IMPACT - iweinberger/dv-impact
5. MIMP - iweinberger/mimp
6. cytoscape wiki - iweinberger/cytoscape-wiki-old

Each docker can be downloaded and run through Docker user the command docker run -ditp 80:80 **container_name**. Each site has it's own Docker image however all 6 sites have also been combined into one docker image which can be found at iweinberger/all-baderlab-sites(https://hub.docker.com/repository/docker/iweinberger/all-baderlab-sites/general)

POW: POW is a website that allows users to predict PDZ domain-peptide interactions for human, mouse, worm and fly PDZ domains. Software:

• python2.7
• svm
• apache2
• apache2 cgi

PRM-BD: PRM-DB allows users to search for a domain or protein by name, all domains from a given species, all members of a domain family, or search for combinations of these criteria. Software:

• apache2
• mySQL
• PHP
• php-mysql
• libapache2-mod-php

DV-IMPACT: DV-IMPACT is a resource for the disease variants impact assessment on domain-peptide PPI networks Software:

• apache2
• mySQL
• PHP
• php-mysql
• libapache2-mod-php

Pathguide: Pathguide is a database that contains information about 702 biological pathway related resources and molecular interaction related resources

• apache2
• mySQL
• PHP
• php-mysql
• libapache2-mod-php

MIMP: MIMP characterizes genetic variants such as cancer mutations that specifically alter kinase-binding sites in proteins. Software:

• Nginx
• Java 8
  • openjdk-8-jre
  • openjdk-8-jdk
• Play 2.2.1
• R 3.6.3
• gcc 9.4.0
• Make
• gfortran
• Flex
• Autogen
• gcc-multilib
• Libcurl4-openssl-dev

Cytoscape wiki (old): Old wiki for cytoscape.

• apache2
• python2
• MoinMoin
• libapache2-mod-wsgi-py3