Using BAI file url in batch config script

[Stef van Lieshout]

I would like to load a BAM file (https url) using the batch script option:

https://software.broadinstitute.org/software/igv/batch

Issue is that the software just seems to assume that the BAI can be found at <BAM-link>.bai which is not the case.

Is there a way to provide the bai link as well?

[Stef van Lieshout]

Anyone? Could this be considered by the IGV team for implementation?

[James Robinson]

Hi, sorry for the long delay.   You should be able to specify the index with a parameter, like this

load foo.bam index=bar.bai

--

---
You received this message because you are subscribed to the Google Groups "igv-help" group.
To unsubscribe from this group and stop receiving emails from it, send an email to igv-help+unsubscribe@googlegroups.com.
To view this discussion on the web visit https://groups.google.com/d/msgid/igv-help/7e7c1378-877a-4bac-a558-042b32f2364c%40googlegroups.com.

For more options, visit https://groups.google.com/d/optout.

[Stef van Lieshout]

Hi Jim, works indeed, thanks for your reply!

@igvteam: would be great if you can add this to http://software.broadinstitute.org/software/igv/batch