DownloadAndPrepareBio4jSources.sh file not found on GitHub

[Kaushik Hatti]

Dear Bio4j team,

First of all, you have done an awesome job!  Thanks so much for the initiative and I hope Bio4j grows to become one centralized BioDB. 

I come from a biology background with little knowledge in databases and just started learning about GraphDBs.  I want to create a local instance of Neo4j-specific implementation of Bio4j. I have successfully done steps 6 and 7.  However, on step 8 file DownloadAndPrepareBio4jSources.sh from https://github.com/bio4j/neo4jdb/blob/master/docs/importing_bio4j_neo4j.markdown couldn't be found (Error: Page not found).

Any suggestions,
Thanks,
Kaushik

[Pablo Pareja Tobes]

Hi Kaushik,

Thanks so much for your comments of support!  :)

I just fixed the broken link for the script file here

(Beware that for some reason uniprot downloads ftp site is not working right now...)

Cheers,

Pablo

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[Kaushik Hatti]

Dear Pablo,

Thanks.  Many other links (AWS Releases, CloudFormation templates) on the same page doesn't seem to be working.  

Will I have full access to Neo4j-specific implementation of Bio4j through AWS?  I eagerly want to get started with querying Bio4J and I am familiar with Neo4J and Cypher. 

Thanks,
Kaushik

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[Pablo Pareja Tobes]

Hi Kaushik,

Yeah, in fact I would strongly recommend you to use version 0.9 that is already imported and fully available in AWS as a public snapshot.

This is the id of the snapshot: snap-1185fd0f (it's in eu-west1 region)

Regarding the documentation you're right, it's quite messy at the moment but we have a major update going on right now and we're focusing on the development of the new version together with its documentation. (Be ready for a new version full of improvements and major changes pretty soon!)

Anyways, don't hesitate to ask any question you may have about how to use Bio4j.

Cheers,

Pablo

[Kaushik Hatti]

Hi Pablo,

Thanks so much!

I will go through it and get familiarised.  I was trying represent Protein Data Bank as GraphDB (with a lot of help from a friend who is a database expert) as part of my PhD (see below).  I would be interested to know short and long term goals of Bio4j (and if there is anything I can contribute).

with regards,

Kaushik Hatti,

Primary interest: Computational Crystallography,

C/o, MRN Murthy Lab,

Molecular Biophysics Unit,

Indian Institute of Science,

Bangalore, India