[Bioc-devel] extraChIPs builds failing on palamino3 and merida1

[Stevie Pederson]

Thanks Shian. Appreciate you taking the time to check that too. I'll make a
few modifications and will bump the version to see if that's the fix.

On Wed, 12 Apr 2023 at 21:17, Shian Su <su.s using wehi.edu.au> wrote:

> Hey Stevie,
>
> For what it’s worth the latest version builds fine for me on my Mac. I
> don’t think you’ve bumped your version number since you removed the shared
> library files, which is needed to trigger a new build.
>
> Cheers,
> Shian
>
> > On 12 Apr 2023, at 5:52 pm, Stevie Pederson <
> stephen.pederson.au using gmail.com> wrote:
> >
> > Hi,
> >
> > I've introduced some C code, modified from FMStable on CRAN, to the
> > intended Bioc 3.17 release of extraChIPs. When I build using github
> actions
> > it works for all three platforms (
> >
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fsmped%2FextraChIPs%2Factions%2Fruns%2F4669758037&data=05%7C01%7Csu.s%40wehi.edu.au%7C6a4c353e9e1a47efc19f08db3b2af477%7Caa7c72e2c5cf4a40a22aa585c04ca07c%7C0%7C0%7C638168827914859588%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=ED%2FhjgRIDop2Ss%2FsxVJrzSyXvbqw3OKycWeORTduqzw%3D&reserved=0),
> but fails on
> > palamino3 and merida1. The build report is here:
> >
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbioconductor.org%2FcheckResults%2Fdevel%2Fbioc-LATEST%2FextraChIPs%2F&data=05%7C01%7Csu.s%40wehi.edu.au%7C6a4c353e9e1a47efc19f08db3b2af477%7Caa7c72e2c5cf4a40a22aa585c04ca07c%7C0%7C0%7C638168827914859588%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=mX27x8%2FX0xvsVPDxeaoRoH9xg89APgi1k9XtYowX3iA%3D&reserved=0.
> It's
> > really not my C code so I'm flying a little blind as I'm very much a baby
> > in the world of C. I actually wish I could just import the compiled
> version
> > directly from FMStable but can't figure out how, even after hours of
> > googling & trying everything within in my capacity. The speedup using
> this
> > is >100-fold so it brings function execution time from minutes to
> seconds.
> >
> > As I'm trying to figure this out, one thought I had was that an early
> push
> > erroneously contained the .o and .so files. I've since deleted these from
> > the repository. Are they resident on those servers still and is that
> > causing the problems? If so, how can I fix this? If not, does anyone have
> > any suggestions?
> >
> > The actual functions which call the routines are at the bottom of
> >
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fsmped%2FextraChIPs%2Fblob%2Fdevel%2FR%2FmergeByHMP.R&data=05%7C01%7Csu.s%40wehi.edu.au%7C6a4c353e9e1a47efc19f08db3b2af477%7Caa7c72e2c5cf4a40a22aa585c04ca07c%7C0%7C0%7C638168827914859588%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=m96K4M9LhA7xDcscCwWjAaVKIDVKZPWZbxjbea2aTwI%3D&reserved=0
> >
> > Thanks in advance,
> >
> > Stevie
> >
> >       [[alternative HTML version deleted]]
> >
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