Question

DESeq2 and data.table impacted by IHW and lpsymphony

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mattjdowle • 0

@mattjdowle-22273

Last seen 5.1 years ago

Hello all, [My first post to this forum, as requested.] I cannot perform data.table revdep checks because DESeq2 was unavailable in Bioc-devel (3.11). https://bioconductor.org/packages/devel/bioc/html/DESeq2.html

The build error is because IHW isn’t building which is in turn because of lpsymphony

In the meantime, DESeq2 has removed the IHW Suggests dependency so that DESeq2 will propagate.

Michael Love asked me to post this here and tag the IHW and lpsymphony packages.

Best, Matt

lpsymphony IHW • 986 views

ADD COMMENT • link updated 5.1 years ago by Mike Smith ★ 6.6k • written 5.1 years ago by mattjdowle • 0

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Thanks for the report. I share an office with the maintainer, so I'll make sure they see this.

It looks like lpsymphony uses the R CMD config F77 option to configure Fortran code, but that's been removed in R-devel.

ADD REPLY • link 5.1 years ago Mike Smith ★ 6.6k

score 0 · Answer 1 · 2019-11-10

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Mike Smith ★ 6.6k

@mike-smith

Last seen 1 hour ago

EMBL Heidelberg

This should now be resolved in lpsymphony 1.15.1

ADD COMMENT • link 5.1 years ago Mike Smith ★ 6.6k