[Bioc-devel] Updating CausalR package after igraph fix

Obenchain, Valerie Valerie.Obenchain at roswellpark.org
Tue Jan 5 16:06:52 CET 2016

Hi Glyn,

It looks like CausalR is broken in release and devel. You'll need to
make the changes to both branches - check out, make changes, bump the
version and check in. Complete instructions are here:


New functions should be added to devel only. Changes in release should
be limited to bug fixes.


On 01/05/2016 06:24 AM, Glyn Bradley wrote:
> Hi All,
> Our package CausalR depends on igraph and so broke when igraph was updated last year.
> We have now fixed CausalR to work with the latest igraph, but we're not sure how we need to go about updating it on Bioconductor, - can we just submit our fixed package as an update, or do we need to do a new submission?
> We may have one small new function in the new package, which simply processes the results of CausalR to produce .sif text files to load into Cytoscape.
> It's only a few lines of code.
> It probably goes without saying, but we're keen to try to make this updating process as pain free and quick as possible - the initial submission/ acceptance of the package last year became quite time consuming, and even if we did have the motivation for a similar process again, I'm not sure we could justify spending the resource.
> There is still a landing page in the 3.2 release for CausalR, even though that version doesn't work with the latest igraph.
> We weren't sure if that was still supposed to be there or not.
> Any guidance would be much appreciated.
> Many thanks,
> Glyn
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