Anybody have a solution to convert fastQC html output to a pdf? If you've got 50 or 500 FASTQs to check, and more importantly share via email, the hmtl output is a little clunky to deal with.
Pierre Lindenbaum suggested apache FOP on twitter. I tried it but it seems it needs an xlt style sheet to work.
I also tried
wkhtmltopdf on my linux machine and
wkpdf on my macbook. Both of these resulted in blank PDFs.
Opening each html one by one and printing to PDF on my mac works, but is a really really slow option.
Point is I want to script this out, ideally in linux, and get a bunch of PDFs in the end.
Posted below are two links with test data, the first shows what the output looks like in a browser, the second is the full output from fastQC.