New refs for software. Allow missing refs for software. Debug mode.

[aozalevsky]

Partially fixes #53

[aozalevsky]

oh, this is quite surprising. Judging from the test case looks like I misinterpreted how links to software should work:

 387                     'Software name': ['<a href="https://pubmed.ncbi.nlm.nih.gov/12580598/">haddock</a>'], 
 388                     'Software version': ['developer'], 'Software classification': ['docking'], 
 389                     'Software location': ['<a href="https://chocolatemuffin.org">https://chocolatemuffin.org</a>']}
 390             temp = GetInputInformation(tmpfilepath)

My impression was that we should use the same link for the name and location. I can understand the logic behind the arrangement in the test case (publication reference + url), but there are no keys for two links in the dictionary and there are multiple references for almost any software for integrative modeling.