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schneebergerlab / syri

Synteny and Rearrangement Identifier
https://schneebergerlab.github.io/syri/
MIT License
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Import Error #166

Closed jaudall closed 1 year ago

jaudall commented 1 year ago

Syri group,

I'm receiving the following error ImportError: For chromosome ID: D07, length in genome fasta: GTSTXTMGD3Gm.genomes.txt is less than the maximum coordinate in the structural annotation file: TM1_GDarw.USDA.3syri.out. Exiting.

I've checked the chr lengths of my respective fasta files. They match the coordinates in the syri.out file on D07. That means the end of the chromosome is involved in an inversion? Could it be an 'off-by-one' error where the actual length of the chromosome is somehow shorter than expected when importing inversion positions? I have no idea, but try to guess what could be the issue and what I could do to work around it on my end.

jaudall commented 1 year ago

FYI, I had something messed up with the order or number of genomes I was loading. User error, but to me the message was a bit too ambiguous.