Error loading ... .vcf.gz: Self-suppression not permitted

[Jade Celis]

Hi,

I have exome sequencing data from 16 different patients in .vcf files.

Now, I want to upload all files to IGV so I can evaluate all patients at the same time. However, it seems like i am only able to upload 6-7 files, after that the program just stops uploading files or I get an error:

'Error loading C:\Users\ ... \ ... .vcf.gz: Self-suppression not permitted'

I tried all files separately and they upload just fine. I only get the error when I want to upload more than 6-7 files.

It is my first time working with IGV, could anyone help me with it?

Kind regards,

Jade

[igv-help]

Hi,

Are the vcf.gz files indexed (with .tbi index files)?  

[Jade Celis]

Hi,

No there are no .tbi files. I do have .cram files?

kind regards,

Jade

Op woensdag 22 mei 2024 om 22:21:02 UTC+2 schreef igv-help:

[igv-help]

Yes you have .cram files, but that is not relevant here.  If the VCFs were large then a .tbi index would be necessary, but they are rather small.  

To investigate this further it would be helpful to see your igv.log file.   You can find this in an "igv" folder under your home directory.   It will have a name like "igv0.log".   Also, please confirm for us the version of IGV you are using.   If you would prefer not to post your log file here you can zip it and email it to igv-...@broadinstitute.org.

Also, if you are able to share your VCFs with us please zip them and send them to the same email.

[Jade Celis]

Hi,

I have added .tbi index files to the directory and now, I can open all files at once. Thank you so much for the help!

Kind regards,

Jade

Op vr 24 mei 2024 om 03:57 schreef igv-help <igv-...@googlegroups.com>:

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