Fix loading bookmark from Galaxy when genome from UCSC

No seqid: The bookmark did not specify a valid seqid: specified 'null'
-------------------------------------------------------

14:22:20.856 ERROR c.a.i.b.BookmarkUnibrowControlServlet - Error while loading bookmark.
java.lang.NullPointerException: null
at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet$1.runInBackground(BookmarkUnibrowControlServlet.java:224) ~[classes/:na]
at com.affymetrix.genometry.thread.CThreadWorker.doInBackground(CThreadWorker.java:73) [genometry-9.1.8.jar:na]
at javax.swing.SwingWorker$1.call(SwingWorker.java:295) [na:1.8.0_191]
at java.util.concurrent.FutureTask.run(FutureTask.java:266) [na:1.8.0_191]
at javax.swing.SwingWorker.run(SwingWorker.java:334) [na:1.8.0_191]
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) [na:1.8.0_191]
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) [na:1.8.0_191]
at java.lang.Thread.run(Thread.java:748) [na:1.8.0_191]

To replicate:
In IGB, navigate to File > Preferences... and then select the Data Sources tab
Disable all data sources except for UCSC DAS
Close and reopen IGB (do not reset preferences to default)
In a web browser, paste the following link:

https://bioviz.org/galaxy.html?version=mm10&feature_url_0=https://usegalaxy.org/display_application/bbd44e69cb8906b5831e0a45935827e7/igb_bam/View/None/data/RNA_seq_Sox9_Control__Tophat2_accepted_hits_.bam&sym_name_0=RNA_seq_Sox9_Control__Tophat2_accepted_hits_&sym_method_0=https://usegalaxy.org/display_application/bbd44e69cb8906b5831e0a45935827e7/igb_bam/View/None/data/RNA_seq_Sox9_Control__Tophat2_accepted_hits_.bam&query_url=https://usegalaxy.org/display_application/bbd44e69cb8906b5831e0a45935827e7/igb_bam/View/None/data/RNA_seq_Sox9_Control__Tophat2_accepted_hits_.bam&server_url=galaxy

Fixed the issue with the loading when the genome is not present in IGB Quickload, had to change the genome version name that was sent to GeneralLoadView initVersion method, before a wrong version name was sent because of which if the data is no there in IGB Quickload it wasn't able to load the chromosomes using that version name for the remaining providers. Also, had to add the autoload functionality for UCSC to load the data which is done as part of this ticket: https://jira.bioviz.org/browse/IGBF-3633. Updated code is present at the branch: https://bitbucket.org/jaya-sravani/integrated-genome-browser/branch/IGBF-2862. Testing is completed, working as expected.

Tested Sravani's branch on Mac:
BioViz Connect - worked
Public trackhubs - worked
Galaxy - worked

I was able to load data without seeing the seqid error when genome was only available from UCSC REST.

Ready for pull request

Will raise the pull request once this one is merged as both have a same commit: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/1013

Raised the pull request: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/1014. Please review and let me know if there are any issues.

PR is merged into "main" branch as per usual. Installers are built and deployed to bioviz.org "early access" section.

Ready for testing.

Tested using main branch installer on Mac.

With only the UCSC REST data provider activated, I was able to load genomes from public trackhubs and Galaxy without seeing the seqid error.

Closing ticket.