[BioC] Re: Bioconductor digest, Vol 1 #41 - 4 msgs
HYing
hy263book@263.net
Mon, 27 May 2002 16:3:9 +0800
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bioconductor-request
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>Today's Topics:
>
> 1. data swirl and the tcltk library... (Joshua Betcher)
> 2. Re: data swirl and the tcltk library... (A.J. Rossini)
> 3. Re: data swirl and the tcltk library... (Laurent Gautier)
> 4. Re: data swirl and the tcltk library... (Jeff Gentry)
>
>--__--__--
>
>Message: 1
>From: "Joshua Betcher" <jb7gv@virginia.edu>
>To: <bioconductor@stat.math.ethz.ch>
>Date: Wed, 22 May 2002 00:34:07 -0400
>Subject: [BioC] data swirl and the tcltk library...
>
>I have two questions, one which is very simple and the other which is
>probably also.
>
>1) When I attach marrayinput I get the following error when I attach tcltk:
>
> Loading required package: tcltk
> Error in firstlib(which.lib.loc, package) :
> TCL_LIBRARY is not set
>
>From what I know I need to set this variable. Is there another package I
>need? If so what do I do once I get it? If not, how would I overcome this
>error?
>
>2) Eventhough this error occurs I can still attach marryInput. From here
>I ran the code data(swirl) and got the following error message:
>
>Error: restore file may be from a newer version of R -- no data loaded
>
>Can anyone tell me how to fix this?
>
>Thanks a lot everyone
>Josh
>
>
>
>
>
>--__--__--
>
>Message: 2
>To: "Joshua Betcher" <jb7gv@virginia.edu>
>Cc: <bioconductor@stat.math.ethz.ch>
>Subject: Re: [BioC] data swirl and the tcltk library...
>Reply-To: rossini@u.washington.edu
>From: rossini@blindglobe.net (A.J. Rossini)
>Date: 21 May 2002 22:06:36 -0700
>
>>>>>> "joshua" == Joshua Betcher <jb7gv@virginia.edu> writes:
>
> joshua> I have two questions, one which is very simple and the other which is
> joshua> probably also.
>
> joshua> 1) When I attach marrayinput I get the following error when I attach tcltk:
>
> joshua> Loading required package: tcltk
> joshua> Error in firstlib(which.lib.loc, package) :
> joshua> TCL_LIBRARY is not set
>
> >> From what I know I need to set this variable. Is there another package I
> joshua> need? If so what do I do once I get it? If not, how would I overcome this
> joshua> error?
>
>Are you running under MS Windows? If not, does R have TCL/TK
>incorporated?
>
> joshua> 2) Eventhough this error occurs I can still attach marryInput. From here
> joshua> I ran the code data(swirl) and got the following error message:
>
> joshua> Error: restore file may be from a newer version of R -- no data loaded
>
> joshua> Can anyone tell me how to fix this?
>
>I think you might be using a version of R < 1.5.0? (I messed up the
>initial announcement, but it should be clear on the WWW site that
>1.4.1 and earlier won't quite work).
>
>--
>A.J. Rossini Rsrch. Asst. Prof. of Biostatistics
>U. of Washington Biostatistics rossini@u.washington.edu
>FHCRC/SCHARP/HIV Vaccine Trials Net rossini@scharp.org
>-------------- http://software.biostat.washington.edu/ ----------------
>FHCRC: M-W: 206-667-7025 (fax=4812)|Voicemail is pretty sketchy/use Email
>UW: Th: 206-543-1044 (fax=3286)|Change last 4 digits of phone to FAX
>(my friday location is usually completely unpredictable.)
>
>
>
>--__--__--
>
>Message: 3
>Date: Wed, 22 May 2002 08:51:11 +0200
>From: Laurent Gautier <laurent@cbs.dtu.dk>
>To: Joshua Betcher <jb7gv@virginia.edu>
>Cc: bioconductor@stat.math.ethz.ch
>Subject: Re: [BioC] data swirl and the tcltk library...
>
>On Wed, May 22, 2002 at 12:34:07AM -0400, Joshua Betcher wrote:
>> I have two questions, one which is very simple and the other which is
>> probably also.
>>
>> 1) When I attach marrayinput I get the following error when I attach tcltk:
>>
>> Loading required package: tcltk
>> Error in firstlib(which.lib.loc, package) :
>> TCL_LIBRARY is not set
>>
>> >From what I know I need to set this variable. Is there another package I
>> need? If so what do I do once I get it? If not, how would I overcome this
>> error?
>
>
>I suspect this comes from the fact you do not have the package 'tcltk' installed...
>and from the fact you use Outlook as a mailer, I suspect you are reporting this
>for the Windows version...
>
>
>
>
>
>>
>> 2) Eventhough this error occurs I can still attach marryInput. From here
>> I ran the code data(swirl) and got the following error message:
>>
>> Error: restore file may be from a newer version of R -- no data loaded
>
>
>raahhhh... again....
>
>
>>
>> Can anyone tell me how to fix this?
>>
>
>
>We know what happens (sigh):this is a binary file and the CVS
>for Bioconductor seems to be in 'gotcha mode' (i.e. screws up the binary files
>on windows...)... we are working on it to get this fixed
>(if urgent need, I can send you the file).
>
>
>
>Hopin' it helps,
>
>
>
>L.
>
>
>
>
>--------------------------------------------------------------
>Laurent Gautier CBS, Building 208, DTU
>PhD. Student D-2800 Lyngby,Denmark
>tel: +45 45 25 24 85 http://www.cbs.dtu.dk/laurent
>
>--__--__--
>
>Message: 4
>Date: Wed, 22 May 2002 05:12:00 -0400 (EDT)
>From: Jeff Gentry <jgentry@jimmy.harvard.edu>
>To: Laurent Gautier <laurent@cbs.dtu.dk>
>cc: Joshua Betcher <jb7gv@virginia.edu>, bioconductor@stat.math.ethz.ch
>Subject: Re: [BioC] data swirl and the tcltk library...
>
>> We know what happens (sigh):this is a binary file and the CVS
>> for Bioconductor seems to be in 'gotcha mode' (i.e. screws up the binary files
>> on windows...)... we are working on it to get this fixed
>> (if urgent need, I can send you the file).
>
>It is no longer a CVS problem - the code is fixed in CVS. The windows
>builds need to be redone.
>
>
>
>--__--__--
>
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>
>End of Bioconductor Digest
= = = = = = = = = = = = = = = = = = = =
Before you require library tcltk, you need type Sys.putenv("TCL_LIBRARY"="D:\\Tcl\\lib\\tcl8.3") (If you have installed tcl software in PATH d:\\tcl) .
It seems there are lots of data cannot be loaded, such as golub.Rdata in multtest package. I have installed R version 1.5.0 in my Windows Platform, but it still told me "Error: restore file may be from a newer version of R -- no data loaded".
There seems some problems about geneplotter package, cPlot and cColor function cannot be executed correctly. And I found these functions both need "plotData" function, but there is not such function in R functions.
HYing
hying99@mails.tsinghua.edu.cn
2002-05-27
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