>
> flowCore should not depend on ks anymore
Thanks Mike,
that's good news. Let me just second the opinion that getting rid of any
"windowing system" dependency in flowCore is a good choice. Last week, I
was trying to get a GenePattern module to work on a server at BROAD, and I
needed flowCore for
class, whereas dispatch is looking for
> > curv1Fitler,flowStats-class.
> >
> > Maybe a solution is in the fact that 'filter' actually seems to
> work --
> >
> > > selectMethod(filter, c(class(dat), class(c1f)))
> >
lter"
> >
> > I'm suspecting that the method here is specific to
> > curv1Filter,flowCore-class, whereas dispatch is looking for
> > curv1Fitler,flowStats-class.
> >
> > Maybe a solution is in the fact that 'filter' actually
filter' actually seems to work --
> selectMethod(filter, c(class(dat), class(c1f)))
...
Signatures:
x filter
target "flowFrame" "curv1Filter"
defined "flowFrame" "filter"
it finds the method for the base class shared by
curv1Filt
lass, so defining a common class curv1Filter_migration
and methods on that ?
Martin
Before I decide to remove the duplicated definitions from 'flowCore'
entirely (which is not desired), Does anyone know how to solve this issue?
Thanks,
Mike
On 04/16/2014 05:06 PM, Mike wrote:
Kevin&
ng using curv1Filter
fres <- filter(dat, c1f)
Error in match(x, table, nomatch = 0L) :
'match' requires vector arguments
Before I decide to remove the duplicated definitions from 'flowCore'
entirely (which is not desired), Does anyone know how to solve this issue?
Thank
Kevin's fix is already pushed to the latest bioc release and devel.
Thanks,
Mike
On 04/10/2014 11:44 PM, bioc-devel-requ...@r-project.org wrote:
> Subject:
> Re: [Bioc-devel] Dependency on windowing systems in the flowCore package
> From:
> Kieran O'Neill
> Date:
>
>>>
>>>
>>> On Thu, Apr 10, 2014 at 3:15 PM, Kieran O'Neill
>>> wrote:
>>>
>>> > On 10 April 2014 14:26, Dan Tenenbaum wrote:
>>> >
>>> > > Hi Kieran,
>>> > >
>>> > >
>>> >
l 2014 14:26, Dan Tenenbaum wrote:
>> >
>> > > Hi Kieran,
>> > >
>> > >
>> > > - Original Message -
>> > > > From: "Kieran O'Neill"
>> > > > To: bioc-devel@r-project.org
>> >
> >
> > >
> > > - Original Message -
> > > > From: "Kieran O'Neill"
> > > > To: bioc-devel@r-project.org
> > > > Sent: Thursday, April 10, 2014 2:03:41 PM
> > > > Subject: [Bioc-devel] Dependency on win
nal Message -
> > > From: "Kieran O'Neill"
> > > To: bioc-devel@r-project.org
> > > Sent: Thursday, April 10, 2014 2:03:41 PM
> > > Subject: [Bioc-devel] Dependency on windowing systems in the flowCore
> > package
> > >
> &
On 10 April 2014 14:26, Dan Tenenbaum wrote:
> Hi Kieran,
>
>
> - Original Message -
> > From: "Kieran O'Neill"
> > To: bioc-devel@r-project.org
> > Sent: Thursday, April 10, 2014 2:03:41 PM
> > Subject: [Bioc-devel] Dependency on win
Hi Kieran,
- Original Message -
> From: "Kieran O'Neill"
> To: bioc-devel@r-project.org
> Sent: Thursday, April 10, 2014 2:03:41 PM
> Subject: [Bioc-devel] Dependency on windowing systems in the flowCore package
>
> In Bioconductor, the core infrastruc
In Bioconductor, the core infrastructure for loading and representing
flow cytometry data is the flowCore package. It contains some very
useful structures, most notably the flowFrame and flowSet classes, as
well as read.FCS, which loads the (somewhat complicated, binary) FCS
file format.
However,
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