hartwigmedical / hmftools

Various algorithms for analysing genomics data
GNU General Public License v3.0
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linx_v1.23.1.jar cytoBands.37.tsv and cytoBands.38.tsv files: Header problems #357

Closed toddajohnson closed 1 year ago

toddajohnson commented 1 year ago

There is no header in the cytoBands.38.tsv file embedded in the linx_v1.23.1.jar refgenome/ directory, so when linx visualizer runs chromosomeRangePlot.R, it crashes (no chrom object to be found by dplyr mutate, since there was no header).

Also, it may not create a problem, but the cytoBands.37.tsv header is delimited with spaces, while the the rest of the file is tab delimited.

charlesshale commented 1 year ago

Thanks for picking that up - I've fixed them both and re-uploaded the Linx v1.23.1 JAR.

toddajohnson commented 1 year ago

Thanks. I've already updated those files in the linx jar, and it did not through errors related to that anymore.