#663 (comment)
  #664 (comment)

  #663 (comment)

  #664 (comment)

  #667 (comment)
  #668 (comment)

  #667 (comment)

  #672 (comment)

  Add a fix amount to shift the regulator when regulator multimer is
  enabled.

  For multimers we do custom rendering. Cytoscape doesn't change node
  data (width, height or position) when doing this but it changes the
  bounding box of the node which causes edges to render tilted.
  Work around this for now by shifting the node to the side by a fixed
  amount.

  Load from unstable version of changed file

  Address #658 (comment)

  Rename changes in sample files back to 'source and sink' since that's
  what we use now for reading and writing.

  Should also fix the failing test.

  Addressing #658 (comment)

  Common bug in sbgnviz caused both issues

  iVis-at-Bilkent/sbgnviz.js@e44d028

  Check existence of infoBoxStyles on item before checking its length
  while loading preferences file

This reverts commit f987a1a.

Adjusting randomize via setOption for layout-utilities is not required now and some extensions became independent from jQuery

  #674 (comment)

* Fixed

* Update

* body-parser

* heroku upload problem fix

* added node_modules

* add engine

* add engine

* express

* Delete node_modules directory

* port

* Update server.js

* Update server.js

* process.env.port => process.env.PORT

* changed the post url

* AF map name specified

* Added map description to converted AF graph

* Description changed AF graph to AF map #680

* Description changed AF graph to AF map #680

* Possible fix to the window fit problem #680

* Added comments

* Assigned port 80

* Map description bug fixed #680

* Added spinner and temporarly set inferNestingOnLoad to true #680

* Modified the map string so that only the visible map will be converted. Error display messages mmodified  #680

* PR changes except Heroku files #682

* Resolved some additional styling issues. (not Heroku yet) #682

* Resolved requested changes including Heroku #682

* URL updated for public server #682

* Resolved the loading from url issue

* Create Procfile

* For Heroku update

* Deleted Heroku files

* Changed public server url #682

* Fixed hidden compartment issue and used setTimeout for fitting the map after conversion #680

* Heroku deployment

* Heroku dependicies deleted

* Heroku sbgnviz update

* Heroku upload dependicies deleted

* Color scheme added and inferNestingOnLoad value set to original value (Issue 8-11) #680

* Reduced the timeout and made smooth transaction while loading the map

* Fixed inferNestingOnLoad is not true while loading #680

* Deleted spinner which is not centered

* Heroku deployment

* Heroku deleted

* Deleted Procfile

For development purposes

SBML map type added to map menu and map type compatibility implemented

SBML palette with dummy nodes and edges created

SBML nodes added to SBML pallete

svg of SBML edges added

New nodes and edges added

All nodes and edges added for new SBML notation

New types of edges added to distinguish  them