Open dBenedek opened 3 years ago
can you share the html file and the tsv output?
you could also try using the --sample-prefix
argument to somalier extract
so that each somalier file has a unique prefix.
Even if I use --sample-prefix=$base
the generated .somalier files have the name from the bam files' read group tag.
Output files: somalier.samples.tsv.gz somalier.html.gz
yes, you would change --sample-prefix
to be unique for each sample, not to a shared $base.
yes, you would change
--sample-prefix
to be unique for each sample, not to a shared $base.
OK, I will try that, thank you!
ok. please let me know if that solves the problem as that's why --sample-prefix exists.
Now the generated .tsv files look OK, but the html file is still blank.
Output files: somalier.samples.tsv.gz somalier.html.gz
ok. I'll make a fix for this for next release. you can edit somalier.html: find Githubissues.
Hello,
I have done the following steps:
I renamed each file inside the for loop, because each dataset's bam files have the same read group, so the file names would be the same in case of the same dataset.
After these steps, there's a .html output file (8.6 MB), however, it is blank, changing axes dows not affect anything.
What would cause this problem?
Thanks in advance, Benedek Dankó