[BioC] flowQ library loading error

Steve Lianoglou mailinglist.honeypot at gmail.com
Fri Jun 17 17:18:39 CEST 2011


On Fri, Jun 17, 2011 at 4:41 AM, René Dreos <talponer at gmail.com> wrote:
> Dear BioC list,
> I have a strange error when I try to load flowQ on R 2.13.0. The
> installation went fine, with no errors but I am not able to load the
> library. My apologies if the error is been solved already, please be patient
> (! :-)), I could not find any solution on this list or on Google. This is
> the error when I load the library:

This is a surprisingly verbose "loading banner" -- which I'm going to cut :-)

>> library(flowQ)


> Error : .onAttach failed in attachNamespace() for 'flowQ', details:
>  call: mysys("convert -list configure", intern = TRUE, ignore.stderr =
>  error: error in running command
> Error: package/namespace load failed for 'flowQ'

It looks as if flowQ depends on having imagemagick
(http://www.imagemagick.org/script/index.php) installed on your

The `convert` command is part of imagemagick, and flowQ is trying to
invoke that command on your system.

If you open up your Terminal and type:

$ which convert

I guess it doesn't find anything? If that's the case, you'll have to
install imagemagick. They recommend doing so through macports, but if
you don't want to do that googling for "install imagemagick os x" that
will turn up other ways.


Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact

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